Mail keeps getting stuck checking mail and just sits there

My dad's dual G5 is having weird mail problems. When you open Mail, it initiates the checking the mail procedure. The Activity Viewer says that it is checking X out of 1700 at this point and it gets to 71 and then hangs on one spam message written in Russian. He has his laptop set up to check this same email account (Pop mail on our virtual server) and it is still working fine, so I think its something on his version of Mail on that computer.
Any suggestions?
If we reinstall Mail, will his messages disappear?
Is there a preferences file to throw away like in the old days?
Thanks!
dual G5 desktop Mac OS X (10.4.10)

Are there 1700 messages on the server? What are his Preferences > Accounts > Advanced > Remove copy from server settings for this account?
Sometimes messages left on the server clog up the account there, or Mail chokes on a message it cannot download and that prevents it from downloading the rest as well. Solving this problem will probably require removing one or more messages from the server.
You may tell Mail to remove from the server all the messages that have already been downloaded by means of Preferences > Accounts > Advanced > Remove now. Alternatively, you may use the Account Info window to remove specific messages from the server — choose Get Info (⌘I) from the Action menu (gear icon) located below the mailbox list in the main Mail window. And if the account allows web access, you may also remove messages from the server that way.
Try removing from the server messages that have already been downloaded and/or the first message not downloaded yet (i.e. the message that Mail appears to be choking on).

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