Hi Nadav
Try e.g. this:
1. Open your Main VI
2. Go to "Save with options"
3. Select Application distribution
4. Select apply new password
5. You are than asked if you want create a Vi library and which password you want. Than (if you selected first the entire hirarchy option) you'll be asked if the VI's included shoud have the same password.
At the end all VI's in this lib are password protected.
Luca P.
Regards,
Luca