Thought I would reply with the the reply from TAC incase anyone was interested:
This is indeed the thing I was planning to check on the Protections. Optimized profile does not automatically enable Protection under "Product Prevalence - Scarce", only Common, as to not impact Firewall productivity with a load.
"Strict" Profile is the one that has all protection enabled by default.
You can either switch to Strict profile or re-configure Optimized profile (by cloning it).
I also raised the question about why on the IPS News Emails sometimes the Protections are ticked or not next to the relevant Protection/Profile and this was the reason:
I reached people responsible for this email feed, and the 'tick' on the Profile does not mean the Protection is enabled by default - those configurations are to be done by user on SmarConsole. Note that "tick' is also on Basic Profile, which has less amount of Prevent by default.
As to what 'tick' means exactly, unfortunately I cannot say.
Hope this helps anyone else if they were interested.