I am putting together this post to bring together all of the bugs/changes that I am coming across and the information I gather about each of them as I moved from Snow Leopard to Lion.

1. SecurID RSA Software Token
The Errror
- The app doesn't launch with an error message of "Error loading the application. Contact your administrator."
The research
- I found a thread that is discussing this but without any conclusive fixes. https://discussions.apple.com/thread/3193550
The Fix
- None Yet

2. Buffalo LinkStation Duo LS-WXL/R1
The Error
- After upgrade, TimeMachine backups configured to access the LinkStation fail with inaccessible device.
- Access to folders with Restrictions set fail with ""The version of the server you are trying to connect to is not supported. Please contact your system administrator to resolve the problem."
The Research
- The Buffalo forums were ablaze with comment at http://forums.buffalotech.com/t5/Storage/Mac-OS-10-7-Lion-can-t-connect-..., which point to a couple sites that discuss how Lion stopped using a authentication mechanism, and the NAS vendors never death with the inevitable. I did download and apply the latest Firmware (1.42) which was released in June 2011, but it made no difference. This site outlines a workaround of the AFP shares, but still doesn't fix the TimeCapsule Emulation issue. http://www.alexanderwilde.com/2011/04/os-x-lion-connection-error-with-af... This site provides a good overview of the issue as well. http://www.smallnetbuilder.com/nas/nas-news/31540-lion-breaks-time-machi...
The Fix
- Haven't tried the workaround yet, and no fix from Buffalo

3. Cisco Anyconnect VPN

4. Cisco VPN

More to come...