Apple Mail's window will not open/show on desktop

Question

Ran into a problem this weekend and can not seem to figure out what is causing it. I open mail and it launches since it is showing in the dock and the mail menu is visible. The main mailbox window is missing and most all of the menus are greyed out, even in the window menu where it allows you to select a window to see the main mail window is not showing up.
I have manually rebuilt the mailbox database and that did not help. I deleted the "Account.plist" file from the ~/library/mail/MailData/ folder and this seem to work. When I launched mail after I deleted this file the Main mail window was there with all my mailbox folders and emails. The only thing missing was the inbox for my main email account. Mail required that a new email account be created otherwise it would quit, I create the email account and everything was fine, until I quit out of mail. The next time I launched it again i was back to not have the main mail window. The only way to get it to come back is to delete the "Account.plist" file again and created the main email account. The only work around I have at this point is not to quit mail.
This kind of behavior tells me a file must be corrupted or something, but I can not seem to figure out which file is having the issue.
Can anyone provide any insight into what could be the issue here.

Answer 1

I am going to look at the fonts as well, thanks for suggestion, not that the original email database is working again, i am getting font error when Mail is opening up but they do not seem to be causing any major problems. Before I did any thing else I check to make sure permission was correct and they were a mess so I repaired them all. It appear the last Maverick update really screwed up the second user account on this computer. The other one was fine no issue bit this one had all sorts of issue most of them were easy fixes like repairing permissions.
Here are the font errors I am now getting
Jun 29 23:54:27 Palermo-iMac.local sandboxd[159] ([14389]): mdworker(14389) deny file-read-data /Users/cpalermo/Library/Fonts/Arial/..namedfork/rsrc (import fstype:hfs fsflag:480D000 flags:40000005E diag:0 isXCode:0 uti:com.apple.mail.emlx plugin:/Library/Spotlight/Mail.mdimporter - find suspect file using: sudo mdutil -t 416245)
Jun 29 23:54:31 --- last message repeated 3 times ---
Jun 29 23:54:31 Palermo-iMac kernel[0]: Sandbox: mdworker(14388) deny file-read-data /Users/cpalermo/Library/Fonts/Tahoma/..namedfork/rsrc
Jun 29 23:54:31 --- last message repeated 2 times ---
Jun 29 23:54:31 Palermo-iMac kernel[0]: Sandbox: mdworker(14390) deny file-read-data /Users/cpalermo/Library/Fonts/Arial/..namedfork/rsrc
Jun 29 23:54:31 --- last message repeated 3 times ---
Jun 29 23:54:31 Palermo-iMac kernel[0]: Sandbox: mdworker(14387) deny file-read-data /Users/cpalermo/Library/Fonts/Arial/..namedfork/rsrc
Jun 29 23:54:31 --- last message repeated 3 times ---
Jun 29 23:54:31 Palermo-iMac.local sandboxd[159] ([14388]): mdworker(14388) deny file-read-data /Users/cpalermo/Library/Fonts/Arial/..namedfork/rsrc (import fstype:hfs fsflag:480D000 flags:40000005E diag:0 isXCode:0 uti:com.apple.mail.emlx plugin:/Library/Spotlight/Mail.mdimporter - find suspect file using: sudo mdutil -t 417242)
Jun 29 23:54:35 --- last message repeated 3 times ---
Jun 29 23:54:35 Palermo-iMac kernel[0]: Sandbox: mdworker(14390) deny file-read-data /Users/cpalermo/Library/Fonts/Arial/..namedfork/rsrc
Jun 29 23:54:35 --- last message repeated 3 times ---
Jun 29 23:54:35 Palermo-iMac kernel[0]: Sandbox: mdworker(14390) deny file-read-data /Users/cpalermo/Library/Fonts/Tahoma/..namedfork/rsrc
Jun 29 23:54:36 --- last message repeated 2 times ---
Jun 29 23:54:36 Palermo-iMac kernel[0]: Sandbox: mdworker(14389) deny file-read-data /Users/cpalermo/Library/Fonts/Tahoma/..namedfork/rsrc
Jun 29 23:54:43 --- last message repeated 5 times ---
Jun 29 23:54:43 Palermo-iMac kernel[0]: Sandbox: mdworker(14387) deny file-read-data /Users/cpalermo/Library/Fonts/Tahoma/..namedfork/rsrc
Jun 29 23:54:47 --- last message repeated 2 times ---
Jun 29 23:54:47 Palermo-iMac kernel[0]: Sandbox: mdworker(14387) deny file-read-data /Users/cpalermo/Library/Fonts/Century Gothic/..namedfork/rsrc
Jun 29 23:54:47 --- last message repeated 3 times ---
Jun 29 23:54:47 Palermo-iMac kernel[0]: Sandbox: mdworker(14387) deny file-read-data /Users/cpalermo/Library/Fonts/Lucida Handwriting/..namedfork/rsrc
Jun 29 23:54:48 --- last message repeated 3 times ---
Jun 29 23:54:48 Palermo-iMac kernel[0]: Sandbox: mdworker(14390) deny file-read-data /Users/cpalermo/Library/Fonts/Tahoma/..namedfork/rsrc
Jun 29 23:54:48 --- last message repeated 2 times ---
Jun 29 23:54:48 Palermo-iMac.local mdworker[14389]: Unable to parse date: "Wen, 5 Jul 2006 11:14:16 -0200"
  Stripped string: "Wen, 5 Jul 2006 11:14:16 -0200"
Jun 29 23:54:52 Palermo-iMac kernel[0]: Sandbox: mdworker(14389) deny file-read-data /Users/cpalermo/Library/Fonts/Arial/..namedfork/rsrc
Jun 29 23:54:52 --- last message repeated 3 times ---
Jun 29 23:54:52 Palermo-iMac kernel[0]: Sandbox: mdworker(14388) deny file-read-data /Users/cpalermo/Library/Fonts/Tahoma/..namedfork/rsrc
Jun 29 23:54:53 --- last message repeated 2 times ---
Jun 29 23:54:53 Palermo-iMac kernel[0]: Sandbox: mdworker(14387) deny file-read-data /Users/cpalermo/Library/Fonts/Tahoma/..namedfork/rsrc
Jun 29 23:54:56 --- last message repeated 2 times ---
Jun 29 23:54:56 Palermo-iMac.local mdworker[14387]: Unable to parse date: "Sun, 15  2002 17:32:41 -0060"
  Stripped string: "Sun, 15  2002 17:32:41 -0060"
Jun 29 23:55:01 Palermo-iMac kernel[0]: Sandbox: mdworker(14388) deny file-read-data /Users/cpalermo/Library/Fonts/Arial/..namedfork/rsrc