After additional research I found out that his license has been expired for two years.

I have designed and built several dozen projects from New Construction to whole-house remodels to deep energy retrofits to additions and kitchen and bath remodels.I'm the Owner/President of Boston Architects and Builders, Inc.

My question is, should I expect additional hoops to jump through when refinancing the first rental, even though we'll own it free and clear?

They offer a nice discount off the settlement fee.

Or is there a deeper mindset that has no desire for the additional "baggage" of owning a home? 

If you were to think like Warren Buffett, this would be the time to Sell and wait for the next bottom in the RE Cycle to Buy at a natural discount instead of searching for a Deal.

...for a $45 additional fee no doubt :)

Thanks for your help, happy to answer any additional questions.

Or can additional names be included on the deed (joint tenancy) without negatively affecting the banks loan decision?

All additions are still in "roughed in" state, i.e studs, electrical runs, and plumbing runs, but no outlets or valves.