I've been a long time player of Tremulous and the Quake II mod it was based off (Gloom). I really want this project to succeed and hopefully make this genre of FPS with RTS elements flourish. I had a few ideas for this game, I'm not exactly sure if they break the guidelines you posted, but I'll try to be as detailed about them as possible, some are just a few suggestions, some are already implemented on certain servers, nonetheless I felt I'd throw them out there and see what you guys thought of them.
Idea 1: Overkill System - Basically, when you have 9 evos or max credits, you acquire overkill points, these points would only be acquired with said evos or credits, but they could be used to buy special team power-ups or items, for instance:
Alien Overkill Powers:
9 evos + 3 Overkill evos = "Queen": A powerful alien that serves as a mobile spawn point/booster, with a huge hit point pool but slow, and mainly used as a support class.
3 Overkill Evos = Swarm: A special alien "grenade" once launched releases 100s of small locusts that disrupt human defencive structures targeting and leave a human base vulnerable to assault for 10 seconds.
6 Overkill Evos= Overgrowth : All alien structures temporarily grow an outer shell capable of resisting high amounts of damage for 3 minutes, but can only be used once every 5 minutes.
9 Overkill Evos= Pestilence: All aliens become volatile with a corrosive gas they can either detonate themselves, or do so on death. Lasts 2 minutes. Only usable once every 5 minutes.
Human Overkill Powers:
2000 credits + 600 overkill credits = Assault Drone: A remotely controlled, highly armored Assault Mech armed with high powered Auto Cannons, but extremely vulnerable to electric shock, unable to jump, and can only repair slowly at a reactor core.
600 Overkill Credits = Mini Nuke, a high explosive timed device capable of leveling an entire alien base, once deployed, you have 10 seconds to reach minimum safe distance. However, Tyrants and Dragoons can swallow this device and minimize its effects to some degree, even move away from the hive, but they are encumbered and cannot move very efficiently while doing so. - Note : it would still be as effective as a nade if swallowed, and said goon or rant would receive an evo for sacrificing itself, plus more even for "kamikazi-ing" humans with it.
1200 Overkill Credits = Scanner Sweep: Overcharge a defense computer to give detailed analysis of Alien positions (essentially see them and their structures through walls), as well as heighten the effectiveness of automated defenses (Turrets acquire quicker, Tesla Coils hit more targets or do more damage) for 3 minutes, can only be used once every 5 minutes.
1800 Overkill Credits = Frequency Rupture: Sever the link between aliens and their Overmind, rendering them unable to evolve for 2 minutes. Only usable once every 5 minutes.
Idea 2: Colony/Reactor system from N7's server.
Basically each team can build a Colony/Reactor which increases the amount of build points they have, however, they must be placed within a certain distance of each other.
Idea 3: Special Advanced versions of structures:
Essentially, you would build a turret/barricade and then choose to upgrade its hitpoints/damage for more buildpoints.
Idea 4: Limited stacking:
By limited I really mean human turrets, allowing at least one another turret to be placed on top, maybe a special version of the turret model could be made to make this seem aesthetically pleasing. But I'm just throwing it out there.
Idea 5: Barricades for humans:
Pretty straightforward concept, a human barricade but I have an idea on how to implement this:
Force field, basically you would have a building with a cylindrical shape like a pylon (which would require additional ones), and you would build another one, and a force field would appear between the two/three/four, etc. that would allow only human life signatures to pass through.
So there you have it, some stuff that came to mind, felt I would throw out there to you guys so I could contribute something to a game that has taken years of my life away already. :P