All BS aside, the reality of this game and the problems with it are as follows:
for someone that has only been around this game for a few months you seem to have a good grasp on what is wrong and how to fix this game. Having played this game from it's early days, I think the first time i played it did not even have tags for the clans, if i am remembering right. In some ways that was fun as you did not really know how many members a clan had so you might grab some easy land and find yourself dead in a matter of minutes. Yes i long for the glory days of earth but we seem stuck with what we have.
In a game with thousands of people, wars are wars. Politics play an important role, and it's a lot of fun. Alliances change, new blood comes and goes, and it keeps the game fresh, fun, and exciting.
In a game with 47 people, wars are not wars anymore. They are simply two sides being fluffs to each other for eternity. And whichever side happens to have more people (yes, people is the metric here, not skill) wins. And not only do they win, they make the game unplayable and unfun for everyone else.
Clan GDI, I assume, was meant to address this. But Clan GDI also takes away a big portion of the game. You can see that half the players here just want to attack the other half, since they are the bigger/stronger half and it's fun to gang up on others. I don't disagree, I wish I would have been on the larger numbers side in a war, it would probably have been a riot.
But the game we have today isn't conducive to any of that being healthy in any way.
There are two real solutions.
1. Grow the player base.
2. Realize you're all playing a game that is deeply flawed and will never really be anything close to what it was or could be, due to the player size.
As someone who got back into browser games over the last 7 months, and has now experienced different games to compare this to, I can easily say that other games do not have these problems. Astro Empires has an extremely healthy war component to it's game. And even being on the losing side of a war doesn't mean that all hope is lost and there is no point in playing. There are mechanics that exist that make it so that you are able to rebuild and contribute in meaningful ways, even after getting your fleet destroyed or bases occupied.
The game doesn't allow scripts or bots or any of the tools that EE uses. So the game doesn't become setup IRC on your phone and wait for alerts to come in at 3 in the morning. Attacking enemies is more involved than waiting for the warchat leader to pick a target and watching a countdown in IRC, then hitting a button 30 times as fast as you can. And the player base isn't so small that you know your enemies first and last name, the name of their pets, and what they do for a living.
In other words, its way healthier than this community.
All of that said, I like EE. I think EE is a fun game. But the size of the player base isn't conducive to the game being played the way it used to be played. So either the game changes, or the player base changes. Or the game dies even quicker, which at this point, might be a good thing.