Your understanding is correct.
- An application for Scientific Advice (or any other procedure) can be submitted at any time, the deadline only determines at which SAWP (COMP) meeting the submission will be discussed the first time.
- After submission, the application is indeed locked and cannot be edited unless reopened by EMA (for example to make changes needed for validation). If the submission is unlocked by EMA before validation, all data can be changed, and documents can be overwritten or added (they cannot be removed after submission). If the submission is unlocked after validation and start date, the data cannot be edited but documents can still be overwritten or added (but not deleted). A document can be deleted from a submission only if the submission is in "draft" state (i.e. before being submitted to EMA for the first time).