I gotta say the example i copy and pasted is a bit confusing.
Basically it's 1pt for each objective held at the end of the round. So on baghdad for example:
If you're marines and you hold C until the end of the round then the score for that round would be 3-2 for the marines. We each play 2 rounds as marines and 2 as INS, after 4 rounds we simply add the total score for the final verdict.
How does that sound?
You're suggestion wouldn't work even if agreed since it's known the current INS scoreboard (moral/kill count) is bugged. let me know if its all clear now.
I understand it perfectly.

Not confusing at all actually (what could possibly be simpler than getting a point for each objective? lol

). I just think that it makes map type uneven, and in multiple map type matches you will have massive unbalance. By keeping map point maximums at a baseline, you effectively remove that problem, and scoring becomes more fair.

If you don't understand what I'm proposing, then we could get together early and I could explain the mechanics behind it.

And how is the morale system bugged exactly? I hadn't noticed. (unless you are talking about the occasional tally switch?)

Aloha and see you tonight!! =D
P.S. - An alternative way to score firefight maps for my proposed method, would be to award 3pts for a win, and in case of a tie if there is a difference in objectives held at the end of the round, award the difference in pts (maximum of 2pts) to the team with more objectives held.