Managing Payroll: Tips on How to Do Payroll for a Small Business

April 27, 2021 By Emily Brazell

This post was originally published on June 20, 2017, and extensively updated on April 27, 2021

Getting payroll right is essential for small business owners. Each employee is counting on you to run payroll every pay period and ensure they receive their net pay on time. At the same time, you must deduct Social Security and Medicare taxes and pay federal and state income tax on your employees' behalf.

At CMP, we know that payroll processing can be complicated, but paying attention to some of the do’s and don’ts of payroll for small businesses can teach you how to avoid the most common mistakes while creating a detailed payroll plan.


How Does Payroll Work for a Small Business?

The payroll process starts with collecting necessary forms from employees and contractors. For example, you will need a W-4 form to tell you how much tax to withhold for each employee. A W-9 form provides information about independent contractors. At the end of the year, you will need to provide W-2 forms to employees so they can file their income taxes.

W-4 forms should be collected from each new hire as part of the onboarding process. The IRS requires these forms. The employee should indicate filing status to ensure accurate withholding.

Managing payroll for small businesses also requires choosing the right pay schedules, meeting filing and payment deadlines, and paying federal payroll tax and state taxes. You will need to:

  • Calculate each employee's gross and net income and hours worked
  • Deduct the Medicare, Social Security, Federal and State taxes
  • Address wage garnishments
  • Make payroll tax payments
  • Deposit payroll to each employee's bank account if desired

The process can be time-consuming, so we recommend hiring an accountant to run payroll.

When you know how to hedge against inflation, your money will stay valuable through this economic crisis and allow you to continue growing your small business. Here are 9 expert-backed strategies for dealing with inflation as a small business owner.

Can I Run My Payroll for My Small Business?

Running payroll can be a complicated endeavor. If you make mistakes with tax withholding or employee information, you may owe back taxes and penalties to the IRS.

There are software options that make payroll easier, including online payroll tools that can help you calculate everything from gross pay to unemployment taxes. However, if you run the payroll on your own and make mistakes, they can be costly.

Payroll services are not expensive and usually cost less than the time and energy it would take you to run payroll yourself.

Download Our FREE Guide: How to Choose a Payroll Service Provider for Your Company

Payroll Tips: Do’s & Don’t on How to Do Payroll for Small Business

If you want to know how to manage payroll for a small business, we are here to help. Below are some tips for managing payroll:

  1. Promptly handle your internal paperwork, including your employer identification number and filing deadlines.
  2. Have a system to collect and file all necessary forms with the Internal Revenue Service and state taxing agencies.
  3. Use a reliable time-tracking system on your website or internal server to track employee hours and ensure that you comply with overtime pay requirements.
  4. Provide employees with the tools and information they need to report their hours and track sick time and vacation time.
  5. Double-check all federal and state tax requirements to ensure that your business complies.
  6. Offer employees the option of direct deposit to process payroll more quickly.
  7. Keep the payroll process as simple as possible.
  8. Contract with a payroll provider or hire an accountant or bookkeeper to run payroll for you and keep accurate records.
  9. Conduct regular internal audits to catch mistakes and correct them before incurring costly penalties and fees.

You should avoid:

  1. Submitting payroll without double-checking your timecards
  2. Putting off calculating overtime
  3. Misclassifying employees and contractors
  4. Tracking hours and paying manually

There are automation and payroll tools available that can make your job far easier than it is now and it is a good idea to take advantage of them. Also, as we stated before, hiring a payroll service or Certified Public Accountant to handle your payroll can take the worry of mistakes and tax penalties and fees off your mind.

Collecting and paying payroll taxes needs to be a priority for all small business owners. It can be a challenge, but it is essential to keep accurate records and stay on top of your tax obligations.

As an employer, are you familiar with your payroll tax responsibilities? Paying taxes on payroll is crucial but can often be confusing. Our blog, A Small Business Owner's Guide to Payroll Taxes: Everything You Need to Know, breaks down the specific payroll taxes you owe as an employer. By reading and understanding this guide, you can ensure you meet your tax obligations, avoid IRS penalties, and smoothly manage your payroll.

Collect employee tax information

Collecting employee tax information is necessary because accurate information will help you withhold the proper amount of federal, state, and local tax. Mistakes in tax withholding can affect employees' net pay and lead to errors in your small business payroll and costly penalties.

Some of the forms you may need to collect employee tax information and report it to the IRS include:

Collecting information as soon as a new employee is hired is essential to comply with tax laws and pay payroll taxes accurately and on time. That way, you avoid paying unnecessary late fees and penalties that may arise because of payroll errors.

Create a Payroll Budget

The first step in handling your payroll is setting a budget that covers taxes and wages. Elements that may impact your budget include your sales volume, staff size, and anticipated profit margins.

Use the following steps to create a payroll budget for your business:

  • Total the number of employees
  • Set pay grades for each category of employee or position
  • Determine the median pay grade for each position
  • Include estimates for employee attrition
  • Determine your budget for yearly salary increases
  • Determine the cost of employee benefits

The information you gather will help you set an appropriate budget for payroll.

Don’t Misclassify Your Employees

There are three main employee classifications – salaried, hourly, and independent contractors. A common mistake is categorizing hourly employees as independent contractors, which can lead to missed overtime or insufficient pay.

Employees should be classified as independent contractors only if they fit the description. An independent contractor performs work on an occasional basis and is paid only for the work they complete. They also supply their own materials.

Failing to properly classify your employees could result in problems with the IRS, including liability for back taxes including unemployment taxes and FICA.

Create a Payroll Schedule

Your payroll schedule determines how often you pay employees. The most common pay periods are weekly, biweekly, semi-monthly, and monthly.

Shorter pay periods mean higher costs and an increased likelihood of payroll errors. For that reason, many small business owners choose to run payroll monthly. The downside of a monthly schedule is that you may struggle to attract top talent to your business.

Don’t Calculate Overtime Every 2 Weeks

The Department of Labor (DOL) defines the workweek as 40 hours. Any employee that works more than 40 hours in a workweek should receive a rate of no less than 1.5 times their regular pay.

The DOL recently made changes to the overtime rule, which could impact your requirements for paying overtime. According to the Fair Labor Standards Act (FLSA), previously exempt employees may now be considered nonexempt.

With these changes, the salary threshold for requiring overtime pay has changed. Now, workers who earn less than $35,568 per year must be paid overtime for hours worked beyond 40 hours in a workweek.

Determine if You Require an Employer ID Number

Most businesses need an employer identification number (EIN) to file taxes, including payroll taxes. If you don’t have an employer ID number, then you need to obtain one from the IRS.

The application process for obtaining an EIN is simple. Any business located in the US or US territories can apply provided the owner has a valid Social Security number. You can receive your EIN immediately with an online application.

The only situation where you do not need an EIN is if you have a sole proprietorship or an LLC with no employees, in which case you will use your SSN. You may need a new EIN if your business changes its structure. You may also need a state tax identification number.

Keep Payroll Records and Adjust to Fix Mistakes

The best piece of payroll advice for small business owners is to keep accurate payroll records. With accurate records, it is easy to identify mistakes and correct them as quickly as possible.

You should maintain payroll records for a minimum of four years after filing the fourth quarter of a year. You should also retain all payroll information, including timecards, for that period.

Don’t Submit Payroll Without Double-Checking Timecards

If you have hourly employees, you should double-check the timecards when entering data into your payroll system. Employees may occasionally make mistakes such as forgetting to clock in or out at the beginning or end of a shift. These issues can result in payroll errors, including mistakes in the payroll tax.

It is your responsibility to ensure accurate pay for every employee. In addition to checking time cards, you should also check to ensure your small business payroll includes reimbursement for gas and travel.

Use Quality Payroll Software

If you handle payroll, make sure to use quality payroll software. The right software will help you catch mistakes before they create problems down the road.

Quality payroll software simplifies the process of payroll processing for small business owners. Payroll software can usually be integrated with your current time and attendance system.

There are payroll programs that will automatically take care of federal tax as well as state and local taxes. Paying employment taxes on time is a must and using payroll software can help.

Don’t Forget to File Tax Forms on Time

You need to file forms and pay federal and state taxes on time to avoid penalties. In most cases, the deadlines are determined by your business's fiscal year.

Electronic employment tax deposits for federal taxes are required semi-weekly or monthly. If you struggle getting these taxes in on time, then hiring a payroll provider or accountant may be the right move.

Navigating business taxes can be challenging for new business owners. Curious about how much business taxes are in Utah? Understanding your obligations is key to avoiding overpayments. For comprehensive insights and tips, check out our article: A 2024 Employer's Guide to Small Business Taxes in Utah.

Outsource Your Payroll or Bookkeeping

You might think that an in-house payroll could save time and money, but it is actually the opposite and may lead to costly payroll errors. It takes the average small business owner five hours to process payroll. Over a year, that adds up to 21 days if you run payroll every two weeks.

The answer may be to outsource your payroll to a third-party provider such as a Certified Public Accountant (CPA). Working with a CPA or bookkeeping professional can prevent errors and save time.

Outsourcing your payroll simplifies the payroll process and makes it easier to:

  • Offer direct deposit to employees
  • Keep your payroll software up to date
  • Prevent errors
  • Reduce penalties

Most importantly, outsourcing your payroll means that you will have the free time you need to focus on running your business and increasing your profits. If you can save the five hours per pay period that the average business owner spends on payroll, you'll be able to focus on things other than calculating payroll taxes and gross pay.

While outsourcing isn’t always necessary, it can be a major help to your growing business. You won’t need to deal with some of the do’s and don’ts we have discussed here. Instead, a qualified accountant or bookkeeper will keep your payroll running smoothly and minimize the risk of mistakes.

Why Payroll Service is Worth It

As a small business owner, it may be tempting to handle payroll yourself with the idea that it saves money to do so. While that line of thinking is understandable, it is also incorrect. In the long run, hiring a professional to handle your payroll can save you time and money. It can prevent costly errors and penalties, not to mention the stress of an IRS audit.

Ultimately, working with a payroll service will ensure that your payroll is accurate and timely and that your employees are appropriately compensated for their work, including overtime.

CMP can help you run your payroll efficiently. Contact us today to learn about our services and schedule an appointment.

Need Help? Let's Talk. Schedule A Consultation Today.

Taxes don't need to be a headache for your small business. Check out our post, 19 Small Business Tax Planning Strategies to Slash Your Tax Bill, for more tax strategies to reduce your tax burden and make the most of every dollar.

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