If reservoir is low the warning will come on. Make sure you've topped according to instruction on reservoir.
Even the smallest leak and test will be over 40 seconds. I like to blow out the bleeders and then leave bleeder uncapped for a day to dry. Then cap bleeder and de-grease area of each bleeder. I'll inspect to make sure no fluid residue around bleeder after cleaning. Then actively work brakes which brings pressure up to maximum within the system. Small amounts of Brake fluid may dry and you'll not see if you wait. So inspect right away for leak. Any oil residue no matter how small indicates a leak.
Test even with a leak will usually have about the same time. So if you see 41 then 45 seconds, that's about the same. But to get higher each time hitting 90 seconds or 5 minutes is not normal for a leak. Now to get 31 to 52 seconds indicates sometime else going on.
It could indicate a few different things. One, moisture in the fluid. Moisture is reason we flush. It lowers boiling point. So each time you repeating test without a long pause, the fluid temp is raising more than new fluid (dry fluid) would. When I flush I've a procedure I use to make sure I'm getting old fluid out of accumulator. I actually evacuate accumulator about 5 times to get it and reservoir flushed first. I've done a few write-ups on this. Here's one on a 200 series which is about the same
Scored 2011 LC W/79K OMG CLEAN (2012 missing link)
Other possible reasons that come to mind are, the accumulator or your pressure switch is/are failing. I suppose if fluid had a high moisture content over an extended period, pump may have gotten damaged.
I don't think your motor was the issue. Motor will sometimes run, than not run as dead spots develop on commutator. Then eventually they will not run. When motor fails system can not build pressure back up at all. Then pedal goes to the floor.
So this again brings back to your reason for replacing motor.
I'm hopefully your junk yard motor/pump/accumulator assy will fix your issue.
One more thing you need to be aware of is; factory states wire is non-reusable. It is a very pricey wire, listing at $170.