This could be completely addressed with the feature suggested in another thread -
Search in a specific folder, not all of them - 
Features - Dynalist Forum
There’s even a Trello voting for this topic, but I guess it hasn’t gotten much attention, so it seems not important to the majority of people. In my opinion, it could be very handy for sure.
Maybe this feature can be what you need to solve your problem. The other idea, although really silly, is to create another Dynalist account and separate what’s related to work from what is personal stuff. Since you’re Pro, maybe it would require you to become a Pro for the second account too, which is not nice, unless the basic free package happens to be enough for the 2nd account.
By the way, that’s exactly the workaround I found to separate things. I also didn’t want to keep logged in with the session opened to my personal account in the work’s computer (mostly for security reasons). I also managed to share, to the Work account, some folders from the Personal account (not so much data sensitive), so I could edit personal stuff easier without opening the entire Personal database. Hope that makes sense. It’s just the workflow I found that happens to be suitable to me. Not everyone will agree with that, of course.