Here’s how our advisors (NEWCO) interpret this. Again I’m not counting any chickens until they hatch (and stay alive for a while 
)
Lei Orgânica n.º 1/2024 de 5 de março, Artigo 15.º Residência
- 4 - Para os efeitos de contagem de prazos de residência legal previstos na presente lei, considera-se igualmente o tempo decorrido desde o momento em que foi requerida a autorização de residência temporária, desde que a mesma venha a ser deferida.
- 4 - For the purposes of counting the legal residence periods provided for in this law, the time elapsed since the temporary residence permit was applied for shall also be taken into account, provided that it is granted.
…in their view:
The GV is a temporary residence permit for investment, so it qualifies as “temporary residence permit” under the terms of article 15 of the nationality law. If the law isn’t changed again in the meantime, there is no doubt that this will apply to you, provided, of course, that your residence permit is granted.
Nationality is not handled [or decided] by AIMA, that process is handled by the Institute of Registry and Notary Publics (IRN).