... We have licensing to brew and sell beer in house. ...
A Brewpub is a type of retailer (generally a Class C) and as such can
not have a manufacturer’s license whether Brewer, Micro-brewer or Small Winemaker.
However, in Michigan if you’re a Micro-brewer (or brewer), which of course does allow you to sell by the glass at a single, primary location (as specified), you CAN hold a simultaneous Small Winemakers License. This is holding two manufacturers licenses.
Generally each license has pretty much the same hoops and you’ll have to jump through them for each one separately ... including the background checks and filings ... blah, blah, blah.
The only place you’re likely to cut the corner on dual licenses is on the health inspections and local approvals.
Other states have different laws.
Federal is another matter.
When you have a Small Winemakers and Microbrewers License at the same location, as far as I know, per the TTB you have to account for your operations as an “alternating premise” ... that is, you may only manufacture one or the other at a time ... and you have to account for and effectively “log out” as a brewery when you are in wine/cider operations and visa-versa.