C-o-n-g-r-a-t-u-l-a-t-i-o-n-s-!!
The early items are, as you say, standard Murphy fare - Deep down, you probably already really knew where at least some of the kinks were, but you hoped for the best anyway… Never works, does it?
However, the decision to power the frogs is not to be taken lightly! - I started with Atlas turnouts and testing suggested the same need - I decided to try and do it right and migrated to Peco Electrofrog plus their DCC snap switches - Testing told me it worked, but it never ‘felt’ right - Tons of wire going all over the place - the twin coil motors had the Peco ‘double microswitch’ mounted on 'em that also controlled some test signals in addition to powering the frog, but even so… [You’ll the same issue if you use Atlas snap relays of course.]
Then curved t/o’s got to be a good idea, and those from Walthers/Shinohara really aren’t designed to be powered - They’re ‘DCC friendly’ and when I tested these even my little GE44 tonner found the signal at l-o-w speed - Once the track was perfect!
That led me to not power the frogs on the next test, and sure enough, frog power was not needed [I did have to modify the electrofrog Pecos to make the (now) ‘dead spot’ smaller, but even they’re now ok. Obviously, Insulfrogs would have been a better choice…]
“OK”, I hear you say, “but I’ve got ‘fancy kettles’, he’s talkin’ a GE44 tonner!” - That’s true, but as I’ve said here before, I use a DZ143 equipped Thomas for ‘early’ track testing - If that little sucker doesn’t run, s-l-o-w-l-y, over the track, I need to fix the track - It’s as simple as that!
You’ll find your most ‘critical’ loco with a little more running, but in my case, ‘Thomas da man!’… He’s survived non-removal of track pins, running in to assorted tools and some serious derails (mainly operator error 
that would have hurt with a ‘real’ loco… No matter how hard I wish, if he doesn’t handle the track, I know my 2-6-0 and 0-8-0 are going