Not necessarily true, I led Savas and for the most part we homed MoD quite successfully to reach 1k. Hero's guilds (Hero, Rest in Peace and Villain) also homed MoD very well. Pretty sure others have done it as well. It is very possible, just requires a continuously active guild.
I think the design is fine, or would be with a few tweaks. We do not want all towers to be dead like Snow town used to be by changing their design to be anti-pk. MoD is meant to be busy, just how other towers are meant to be well protected. This is why the flag HP is different.

I don't think we can blame the design for the lag blocking either. I have seen this account in particular create multiple accounts in a line to block wider entrances and pathways. In my opinion, the best way to go is to re-introduce needing a guild tag to enter towers, but only for players with less than a certain number of kills, let's say 300 for instance.