If you plan to use Avisynth, or edit in NLEs, stick to 720x480. While 352x480 is closer to true VHS clarity, the 352x480 resolution is best saved for final MPEG usage, if any. For streaming copies, you'll use netiher, sticking to 1:1 aspects with either 640x480 or 720x540.
WMP has always been terrible. Use VLC. For true preview on AVIs, not watching, I use
VirtualDub.
No reason for uncompressed, wastes space, has CPU and I/O overhead. Use lossless
Huffyuv. Due to 32/64 OS issues, I use
Huffyuv only to capture, and Lagarith for all intermediary work (restore, edit, etc). Most 64-bit software hates Huffyuv, and the ffmpeg version has interlace flaws.
VirtualDub basic "scissors style" editing, yes. Cut what you want removed, or highlight what you want to keep, then save with Direct Stream Copy mode. You cannot use VirtualDub to rearrange footage, it's not an NLE. Even the append function can act wonky, so I often avoid it.