My wife and I both have regular jobs! My wife also run a small business on the side Should or can file file our taxes separately from her small business

[Carl]

All income from all sources will be reported on your joint tax return. For the business, it will be reported on SCH C as a part of your joint tax return. For that you will need to use TurboTax Self-Employed which will handle all of your income from all sources just fine, assuming that your wife is the one and only owner of the business.