Apologies for not having picked up your questions. I don't visit the Alfred Forums often and I didn't get notified of the activity on this thread. <sigh>
Exactly. Just need to have a look at all of the shell scripts and make sure that the paths are correct. There may be environment variables available in the shell that Alfred starts up that would point to these places more generically, so the paths wouldn't need to be hard coded in those shell scripts. I haven't investigated this at all. Just a guess (hope?)
Glad that you were able to figure it out.
BTW, Thanks @CarlosNZ for a nice solution to the multiple timezone problem, for those of us who work in multiple timezones.
Mark