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From there, select the employee in question and navigate to the Payroll tab. Under this tab, you can add a new item name for the deduction you wish to make. This will enable you to easily manage the employee’s payroll deductions. QuickBooks’ Tax Penalty Protection is a stand-out feature in its Elite plan. For tax notices not in collections, it will deal directly with the Internal Revenue Service (IRS) and cover up to $25,000 per year in penalties, regardless of who’s at fault. However, you must submit IRS notices to QuickBooks within 15 days of receiving them, and it must have reviewed your payroll setup before the incident.
Many or all of the products featured here are from our partners who compensate us. This influences which products we write about and where and how the product appears on a page. Here is a list of our partners and here’s how we make money. Within the app itself, you also have a knowledge database of latest compliance requirements. To sum up, QuickBooks Payroll is a highly intuitive and easy-to-use application even for first-time users.
We can help you setup and maintain your non-profit organization’s tax-exempt status by handling all the IRS reporting for you. All of your bank and credit card transactions automatically sync to QuickBooks to help you seamlessly track your income & expenses. Ping me if you require additional assistance managing your employee’s deductions.

We’ll help you stay compliant with our guided payroll setup. Our payroll experts are available to help you assist you along the way. Money movement services are brought to you by Intuit Payments Inc. subject to eligibility criteria, credit and application approval. You can do it yourself or let us help with expert migration assistance, step-by-step guides, demos, and free phone and chat support. We also offer expert-led webinars, easy-to-use guides with no additional cost. Learn more about migrating, including our assisted migration process where we do the work for you.
If a user provides accurate information on time and something still goes wrong, QuickBooks will pay the payroll tax penalties. Of course, you need to sign up with QuickBooks partners that administer these plans. For instance, workers’ compensation is powered by AP Intego and health benefits are provided in partnership with SimplyInsured. In this section you can explore Workers’ comp policies, 401(k) plans, or health plans. We partner with providers to offer you these great services and they integrate with your payroll. If you are using QuickBooks Desktop Payroll for employee direct deposits, we would like to notify you of an important pricing change that QuickBooks will be implementing.
Users praise the app for its ease of use, data-syncing capabilities and the fact that employees can use it to log time worked. However, glitches arise when the app is updated, causing user frustration. QuickBooks Payroll Premium and Elite plans come with QuickBooks Time, which lets employees clock in and out on their smartphones. The Elite plan also includes a geofencing feature that notifies employees to clock in and out based on when they arrive and leave a job site.
Even though your employees’ information will be automatically added from Step 4, it’s important that you do review each time in order to lower any chance of mistakes. This step is also where you’ll enter and confirm your hourly employees’ hours worked. Now you’ll need to enter the rest of your employees’ personal data and answer some other questions about how you want to run payroll going forward. You’ll only need to worry about this the first time you run payroll for a particular employee.
You can choose whether you want your employees to have access to the workforce portal or not while adding their names to the payroll database. QuickBooks Payroll has some 20 reports, such as payroll billing summary, payroll deductions and contributions, payroll tax liability, total pay, workers’ compensation, etc. You can customize to add or delete the columns that you want in the reports before running them. If you mark a report as a favorite, you can access it in a single click the next time. You can either export the reports to Microsoft Excel or print them directly. QuickBooks Payroll calculates, files and pays all federal and state payroll.
Terms, conditions, pricing, features, services and support options subject to change without notice. QuickBooks Payroll is a great choice if you already use QuickBooks Online and are looking for payroll software that will make your life just a little easier. quicbooks payroll Although it’s designed for businesses with up to 50 employees or contractors, it can accommodate up to 150 workers. The software integrates directly with QuickBooks Online, can run payroll automatically and offers same-day or next-day direct deposits.