I saw the title of the thread and was like...
I get what the OP was saying, but I can't say I agree. Maybe it is the old MechWarrior player in me, because I can't get enough of tooling in the Mechlab.
I understand the idea of it being extensive, especially for 3025 and for a dropship refit, however I feel that HBS made some good choices with the system. I like the hardpoint system and how it sticks with maintaining the relative flavor of the mech (even if a few examples didn't 100% translate from MWO to BattleTech). I also like how the engines are permanent. It is a dropship and not a factory refit, so not changing the engine seems reasonable.
Overall it is a nice middle ground between the Table Top, lore, and MechWarrior/MechCommander. It allows players to have fun building their new and interesting creations without going too wild, and yet also accommodates players who may want to do less with it (like purely replace items 1 to 1 with stock).
It feels like a win-win to me.