I opened Cydia up yesterday and there were 4 updates that I ran. I remember there was FiveRowGUI, Supreme Preferences and I don't remember the other 2. Anyways, I ran the updates and I think about half way through it, the phone rebooted. I wasn't paying attention and just saw the Apple start up logo on the screen. Now when I try to open Cydia, it crashes. Sometimes I will see a black screen and then it will crash and return back to the springboard. Sometimes I will get the icons on the bottom of the UI and the Loading Data with the spinning pinwheel and then take me back tot he springboard.

I SFTPed in and was able to delete Supreme Preferences out of the Winterboard folder because that was my first guess at what went wrong but that didn't help. I don't think it was the FiveRowGUI because I currently have that running and it is working fine.

So I am looking for suggestions. Any ideas on what to do to fix this problem? Is there any way I can delete Cydia on the phone via SFTP and then download it and then install it again via SFTP? Anything would be helpful.

Not sure if some sort of corruption is causing Cydia to crash or is it caused by the stuff you installed.

You can try this:
ssh/sftp or ifunbox to your phone (must have root priviledge).

go to /var/lib/apt/lists - remove everything in there
go to /var/lib/apt/lists/partial - remove everything in there.

Try start cydia again to see if that will work

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I had the same problem with cydia a while ago, it rebooted while updating & then constantly crashed whenever i tried to open up cydia.
All i did was restored the FW & ran redsnow again, then everything was fine.