Yes, you can file another stop notice so long as you (1) timely served a Preliminary Notice; (2) File the stop notice within 30 days if a notice of completion (many times referred to as a notice of acceptance on public works) or notice of cessation is recorded. If there is no notice of completion or cessation recorded, then within 90 days of completion.
I would not file a complete release of stop notice, I would file a partial release only covering those amounts the General Contractor is going to be paying you on. Otherwise, there is an argument that you have acknowledged satisfaction of the original stop notice and could be precluded from re-filing a new stop notice covering those amounts the General Contractor has not paid you on.
You can get a Partial Release of Stop Notice from my website: www.kronandcard.com/forms. Feel free to contact me with any questions or concerns.
Disclaimer: Please note that this answer does not constitute legal advice, and should not be relied on, since each state has different laws, each situation is fact specific, and it is impossible to evaluate a legal problem without a comprehensive consultation and review of all the facts and documents at issue. This answer does not create an attorney-client relationship.