Your screenshot links are dead.
Does the data from the footage suggest that the other clips were recording on different settings?
Yep. Notice how the data rate and sample size graphs are very different for the troublesome clips? Also, notice how the troublesome clips list the number of delta frames? Delta frames are incomplete, predicted frames that only encode the differences between keyframes--that's usually OK for playback, but not editing. So I suspect that the settings did indeed change between the recordings.
FWIW, MS Video 1 is a lousy dinosaur of a codec; I do most of my screen recordings with the Lagarith Lossless Video Codec. If you don't want to redo your screen recordings, I'd suggest converting them to Lagarith, but you'll have to use another program to do this other than Premiere Pro or AME.
Sorry about the dead links, here they are again: http://1.bp.blogspot.com/-PSQjkDMMq9o/TnnXX9FCUPI/AAAAAAAAASg/5ux9m40grYs/s1600/camstuidio %2Bvideo%2Bproblems%2B1.png
Colin, thanks for the details. I've heard of LLVC - what program does the convert?
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Any application that can use VfW (Video for Windows) codecs can use Lagarith--it installs both a 32-bit and 64-bit version (Pr needs the 64-bit version). I haven't tried, but you may actually be able to use something like Windows Movie Maker to convert these.
There are lots of payware and freeware video converters available. VirtualDub would probably work just fine for this; it's free. I'm not a big Vdub guru, but there are plenty of tutorials out there about processing simple conversions. Mr. Jeff Bellune, who posted above, might have some ideas
VirtualDub with Lagarith works like a charm! Thanks!
Marvelous If you need to do future screen recordings, you might consider using Lagarith as your screen capture codec; I've had good luck and great results doing just that.