Wow Josh. If only you had written the documentation. That's the trouble with it. People like me look for definitive instructions because we're not 24x7 network guys. Great documentation would layout the reasons to go this way or that like you just did. That being said, here's my summary based on this discussion.
1. We have multiple VLANs running down 3 links on the etherchannel. Thus we should use trunk mode since it's not a single one.
2. We have another etherchannel with just 1 vlan (vmotion), but across two links. that should be access mode. Or is it still trunk because it's multiple links?
3. I'm not sure what crash dump logger is nor how it applies to my situation.
4. I've seen the bpduguard setting before what is the exact syntax to use for us? 6500 series.
5. I'm not sure if our switch would want to route on this port. How do I tell? Right now I have switchport setting in there.
Thanks!