Note 2 is by a CPA. For the eligibility to be conclusively passed, it will have to be marked a passed by an officer and a note will be entered, which will look like this:
#4,004
In most cases only after eligibility is conclusively passed, will the security be initiated.
Security only starts after the eligibility is conclusively passed for most applicants.
If your eligibility is conclusively passed, then if your security has not been initiated, it soon will.
The security at an average takes 110 days as per the security screening manual. It can take longer or less, based on many factors such as whether you are inland, subject to record check or comprehensive security screening etc.
To read more on security and the security screening manual, see
https://bit.ly/2SSLBuL
As regards note 1, that is verification of your personal and physical information, i.e. your height, eye colour etc.