Today in QuickBooks: Payroll, Banking Connections, and Migration Pitfalls
This week's QuickBooks brief covers bonus payroll runs, direct deposit timing, bank feed errors, attachment migration gaps, and e-commerce integrations.
- Payroll season is in focus: bonus-only paychecks, state W-2 filing in Desktop Enhanced, direct deposit funding speeds, and Workforce work-location setup all landed this week.
- Banking and integration issues dominate the community queue — Error 324 disconnects, missing-bank search failures, and PayPal sync problems each drew detailed walkthroughs.
- Migrating to QuickBooks Online? A significant chunk of attachments will not transfer automatically, and you will likely need to upload them by hand.
Payroll and Direct Deposit Timing
Running bonuses through QuickBooks Online Payroll sounds straightforward until you hit the tax and direct-deposit trade-offs. Our guide to /issues/how-to-pay-employee-bonuses-in-quickbooks-online-payroll/ walks through gross versus net bonus checks and where each method creates headaches. On the Desktop side, Enhanced Payroll users filing state W-2s face a manual, multi-step process involving Excel and the interview wizard — see /issues/filing-state-w-2s-with-quickbooks-desktop-payroll-enhanced/. If funding speed is the bottleneck, /issues/quickbooks-direct-deposit-lead-times-and-how-to-change-your-funding/ explains how to switch between 1-day, 2-day, and 5-day options — though the available tiers depend on your payroll subscription.
Bank Feeds, PayPal, and Missing Banks
Error 324 is the banking headache that will not go away: QuickBooks Online loses sight of a connected account, and the fix requires updating sharing permissions at the bank level across every company file. The full breakdown is at /issues/quickbooks-online-error-324-why-bank-feeds-lose-accounts-and-how-to/. If your bank simply does not appear in search results during setup, /issues/can-t-find-your-bank-when-connecting-online-banking-in-quickbooks/ covers search strategies and how to request that Intuit add an unsupported institution. PayPal users hitting permission errors and missing transactions should read /issues/connect-to-paypal-app-setup-admin-requirements-and-sync-fixes/ — admin credentials, history limits, and tax settings all play a role.
Migration Gaps and E-Commerce Connections
Not every attachment survives the move to QuickBooks Online. Our piece on /issues/quickbooks-online-migration-why-some-attachments-don-t-transfer/ explains why files get left behind and how to manually upload what did not carry over. For e-commerce, we published setup walkthroughs for Shopify (/issues/connecting-shopify-to-quickbooks-online-what-you-need-and-what-to/), Amazon Business (/issues/connecting-an-amazon-business-account-to-quickbooks-online/), and OpenCart via OneSaas (/issues/connecting-opencart-to-quickbooks-online-through-onesaas/) — each with its own product-matching and payout-account quirks worth reviewing before you sync.