Payroll

    payroll setup checklist for new employers

    Everything you need before running your first payroll: EIN, state accounts, withholdings, deposits, and reporting cadence.

    Running payroll for the first time has a long runway of setup that has to be right before the first check is cut. Missing a state unemployment registration, choosing the wrong deposit schedule, or failing to set up withholding accounts are the most common reasons new employers get fined in their first quarter.

    This is the sequence AA walks every new employer through. Get the federal and state registrations done first, then set up each worker correctly, then pick a deposit and reporting cadence that matches your liability — and reconcile every quarter to the penny.

    key takeaways

    • Register for state unemployment (SUI) before your first payroll — it's the most common first-quarter fine.
    • Payroll taxes follow the employee's work location, not your HQ — register in every state where someone works.
    • Deposit schedule (monthly/semi-weekly/next-day) is set by accumulated liability, not preference.
    • Form 941, Form 940, W-2s, and W-3 must reconcile to the penny against deposits.

    federal setup before your first payroll

    You need a federal Employer Identification Number (EIN), which you apply for online and receive immediately. You also need to choose a payroll schedule that aligns with state pay-frequency laws — some states require specific frequencies (semi-monthly, for example) or minimum number of days between paydays.

    Register for federal unemployment (FUTA) and determine your deposit schedule for employment taxes. Most new employers start as a monthly depositor; businesses with larger accumulated liabilities move to a semi-weekly or next-day schedule.

    state registrations

    Every state where an employee works generally requires its own employer tax accounts: state income-tax withholding, state unemployment insurance (SUI), and (in some states) disability or paid-leave programs. Missing the SUI registration is the single most common first-quarter fine for new employers.

    If you have employees in multiple states, you must register in each one — payroll taxes follow the employee's work location, not your headquarters. Reciprocal agreements between some states simplify withholding for cross-border employees, but the registration still has to happen.

    • State income-tax withholding account
    • State unemployment insurance (SUI) account
    • New-hire reporting (required within days of hire in every state)
    • Paid family/medical leave or disability where applicable

    per-employee setup

    Each employee needs a completed Form W-4 (federal withholding) and the state withholding equivalent, a Form I-9 for work authorization (kept on file, not submitted), and a decision on benefits, garnishments, and direct deposit. Contractors need a Form W-9 on file before the first payment so year-end 1099 reporting is clean.

    Reasonable documentation matters: verify the W-4 against the Social Security Administration's records, confirm direct-deposit authority in writing, and keep I-9s separate from the personnel file as the rules require.

    deposit schedules and reporting

    Payroll taxes have strict federal deposit schedules — monthly, semi-weekly, or next-day depending on accumulated liability — and late deposits carry penalties that compound monthly. The quarterly Form 941 (federal payroll tax return) and annual Form 940 (FUTA), plus W-2s and W-3s, must reconcile exactly to what you deposited during the year.

    For 2026 the Social Security wage base is $184,500 and the employer FICA rate is 7.65% (6.2% Social Security + 1.45% Medicare). Getting these numbers right on every check is the foundation; reconciling them on every return is the control.

    how AA helps

    AA stands up your federal and state payroll accounts, runs payroll on schedule, handles deposits and every quarterly and annual filing, and reconciles to the penny — so your first payroll runs clean and every one after it.

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    frequently asked questions

    Do I need to register in a state if I only have one remote employee there?

    Generally yes. Payroll taxes follow the employee's work location, so a single remote employee triggers withholding and unemployment registration in that state. Nexus for income tax is a separate question, but payroll registration is usually required regardless.

    What's the 2026 Social Security wage base and why does it matter?

    The 2026 wage base is $184,500. Social Security tax (6.2% employer) stops once an employee's wages exceed that cap, but Medicare (1.45%) has no cap. Your payroll system must stop the Social Security portion at the cap automatically.

    When are W-2s and 1099s due?

    Copies to recipients and filings with the IRS/SSA are generally due by January 31. Missing the January 31 deadline triggers per-form penalties that scale with how late you file, so AA closes the prior year early and files on the deadline.

    Ahmed

    written by

    Ahmed

    Founder & Strategic Director, AA Business Financial Management

    Ahmed is the founder of AA Business Financial Management and has spent over two decades preparing taxes, structuring entities, and advising small and growing businesses across all 50 states. He leads AA's proactive tax-planning, entity-structuring, and year-round financial-management practice.

    meet Ahmed

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