Oh my god FINALLY! Mission 2 pissed me off to no end but the first 2 missions are all I'm going to show before I make this, find the improvements, then make the real thing. I'm actually EXTREMLY pleased with how Mission 2 came out.
I have decided to go for a no damage run as you can see in the video.
So far here are the possible improvements I'm seeing:
Mission 1
Menu selection can be faster, I was faster when going to Mission 2.
Uphill = slow, we don't want that.
Ersatz actually beat my time against Formor (first boss). While on the subject of the first boss, I'm pretty sure I missed one shot when he was moving back.
Mission 2
Might be able to navigate those cliffs you have to jump to climb faster.
Bombs could be thrown faster at hanging submarine mini-boss
I beat the 2nd boss (Emain Macha) TOO fast and get his card. Whoops ;)
EDIT: When there are too many sprites on the screen, it lags, lag = automatic desync and thus I needed to get a version with lag reduction. Since I couldn't get lag reduction to turn on, I've decided to just play through the game, find what I can, and make the real movie. Here is the how the movie came out for now.
http://home.ripway.com/2005-3/270828/MetalSlugAdvanceWIPcancelledHyakutaro.zip
This gets about 5/8ths of the Mission 3 done. I actually recorded a little bit further but I accidently erased it.
Wish me luck on the real movie.