Best Accounting Software for Small Business of ; Best Overall: QuickBooks Online ; Best for Micro-Business Owners: Xero ; Best for Service-Based Businesses. Top accounting software picks include QuickBooks Online, Xero, Zoho Books, FreshBooks, Wave, Sage Accounting and QuickBooks Enterprise. Best Accounting Software for Small Business. Intuit QuickBooks Online; FreshBooks; Melio; Pabbly; Wave; Clockify; Sage 50cloud; Xero; Zoho Books.

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