Here's a step-by-step to rename "oldibay" to "newibay"
1) Create newibay in server-manager
2) Open a shell as root and rename the ibay folders
# cd /home/e-smith/files/ibays
# mv newibay newibay-xxx
# mv oldibay newibay
# mv newibay-xxx oldibay
3) View the account settings for each ibay and set the new ibay to match the old ibay
# db accounts show oldibay
# db accounts show newibay
Now, for each item in the output EXCEPT Uid and Gid, set newibay to match the setting from oldibay
This code block *might* take care of this for you:
OLDIBAY=oldibay
NEWIBAY=newibay
#
# List the db variables to check
DBVARS="AllowOverride CgiBin FollowSymLinks Group PublicAccess UserAccess PHPBaseDir Name"
#
# set the db variable in $NEWIBAY *only* if it exists in $OLDIBAY
for dbvar in $DBVARS; do db accounts getprop $OLDIBAY $dbvar && db accounts setprop $NEWIBAY $dbvar "`db accounts getprop $OLDIBAY $dbvar`"; done
4) Activate the changes (if any) from step 3 and fix the permissions on newibay
# signal-event ibay-modify newibay
5) TEST THE NEW IBAY
6) If the new ibay works and serves your desired content, delete the old ibay from within server-manager (this step gives an error if there isn't a folder for server-manager to delete, hence the 3rd "mv" command in step 2).