Not a problem.
Some of the restriction of Apache suEXEC is not necessary to me, as when you make suEXEC happy with the script permission, the end result might be exactly as what LSWS produce without those restrictions.
Basically, we want our suEXEC implementation easy to use while maintain the same level of security as Apache's.
In this case, what you need to do to make Apache suEXEC happy with the script? I assume you need to fix something like ownership/permission of the script. After the fix, does the script work differently than what LSWS does now?
We are open to suggestions on enhancing the security of our product, and we will be very happy to implement a useful feature.
I might be completely wrong as I am not a expert on Apache suEXEC, your current Apache suEXEC may not allow a normal user to execute any CGI script in suEXEC mode, as it may require the script owned by 99/99 or a user other than the user who own the directory, it is not possible for a normal user to change the file ownership.