Hello,
I think Microsoft is going to make it so that programs will silently fail
instead of asking for permission during startup. This is a case where the
program you are using isn't designed for Vista, and you will have to wait
until they release a Vista-compliant version before it will work correctly.
Unfortunately, Vista does not allow programs to be marked as "always run
with admin permissions", because if such a facility were allowed, malware
would be able to run such programs in the background and use them to bypass
security restrictions, thereby rendering the security invalid.
Imagine the case where you marked the command prompt to always run with
admin permissions. Malware could then start a command prompt without you
knowing about it, and be able to take over your computer using this command
prompt.
You should find as we move closer to RTM and afterword that programs will be
redesigned for Vista and will not require startup programs to run as
administrator, and that this problem will eventually disappear entirely,
although it will take time.
- JB
Vista Support FAQ
http://www.jimmah.com/vista/