Not really anything you can do to make everyone happy in this situation.
This is true.
Considering that the original post was about locking out base-taking when there isn't a sufficient number of people on to put up a defense, lowering the eny value of troop transports would seem to more directly and temporarily address this issue rather than simply making base capture harder at all times.
I believe that eny can be adjusted to kick in at whatever level of imbalance is desired.
The merits of the OP's request and whether it should be addressed at all as a separate issue, in the context of actually discussing how it might be accomplished, it would, in my opinion, be no more of a "horrible" idea than any others I've read.
