Shows definite talent.
To get the negative stuff out of the way; in the whole, this series has some weak points. The grammar errors (missing capital letters and punctuation marks, mostly) in the dialogue get a little annoying at times. Whether or not a character is going to open his mouth when he talks seems entirely up to whether or not you have sprites of that character talking. Which brings me to my second point; I didn't see any customized sprites whatsoever (aside from Public Domain stuff), and some situations could've really benefitted from some altered sprite work. Then, there's the mixing of bittages and sprite resizing. I'm not too picky when it comes to that, but when a Rockman & Forte Megaman flies a Megaman Power Battles Rush and transforms into a Megaman 7 Super Adaptor Megaman, it's getting out of hand. Usually the idea with sprite movies is to recreate the gaming experience, and when everything looks different that doesn't work out. This too could've been solved largely by customizing sprites. Lastly, jerky animation. Roll's head bobs up and down when she blinks, Wily's hair changes color when he talks, and Duo actually flashes colors when he's idle. I assume you used "trace bitmap", but I'm thinking that you perhaps didn't cut all the sprites from the same sheet. I think that when all the sprites aren't traced from one image file, their sizes and colors can start to vary. My suggestion is that next time, you save your sprites as animated GIFs with transparent backgrounds. Import them into Flash, and they're immediately lined up right.
Now, don't yell at me yet, I just wanted to get all that out of way. As you can see I did give you a decent score, because what is clear from your movies is that you have a good deal of cimenatic skill and talent. In fact, stuff like the attack of the Bass clones reminds me to a lesser extent of the style of Rise of the Mushroom Kingdom, and though I loathe DBZ-style anything, the final Bass/Megaman showdown was really stylish. And your attention to detail in music and sound was top notch. Thumbs up. I think that you could score some even bigger hits if you found someone to collaborate on movies with; someone to keep the grammar in check, make new sprites when you need them, and fix other such small flaws. Good luck with it. Regardless of my criticism, again I say: you have a great sense of cinematic style.