Navi knew her duty was to protect the Princess. In every one of his incarnations Link had been fully capable of handling himself and Navi should trust that would come out of this unscathed. Besides Ganandorf's end game was always the complete domination over Hyrule. With the Hero and Princess gone he could with enough time convince the people he was a fit ruler and he did need them on his side but that would never happen if he started a fight to the death in the middle of Castle Town square. He'd likely wait for a less public location and more stealth like means. Link was right, for the moment this could be solved with words. Midna was a skilled politician she also would not be foolish enough start something here. Dark Link worried her slightly, even if he was no longer physically present she could still feel his presence. She trusted though that Ganondorf would keep him under control.

Even knowing all of this something inside Navi didn't wish to miss this. Of course Link would tell her what happened afterward but she knew the people here and there magicks much better than he did. She could help him. She lingered for just a few minutes. She'd hear just the beginning to make sure Link was alright, then she'd take the Princess to safety. As she'd expected Link started with an honest question regarding the Cycle of the Goddess. If this was to be a sportsmanlike debate then this was a mistake. Navi herself could conjure up a thousand arguments on why this cycle was not a good thing and she was the one fighting to protect it. As she expected Midna did just that rebuking Link rather effectively. He was a warrior, not a politician.

Navi decided that while Link wasn't doing a brilliant job he would be fine. She was about to take the Princess elsewhere when Midna offered a challenge to all three holders of the Triforce. Navi stopped. Even she knew that leaving now would look like cowardice. She could find an opportunity or excuse to remove the Princess from the situation later but leaving at this moment would not be good for Zelda's reputation. Midna would make sure that everyone knew she had run and hidden inside her Castle. If she had to stay anyways she might as well participate.

She stepped forward her eyes sharp and her skin glowing ever so slightly an iridescent blue. "No one here is questioning your power Lady Midna." Navi had more experience with the land of Twilight than any here but even she was relying on the rumors of that day. "The power of the Land of Twilight is formidable, one might even say to rival that of the Goddessess if your family still wields the Fused Shadows. It is your motive that worries us. The last time your people graced us with your presence you came to conquer. You blacked out the light of our world and crippled our Light Spirits at the behest of the King of Evil. Why should this time be any different. If we vote you into the Castle should we find the Land again cloaked in Twilight." She hoped she'd gotten all of that right. The Twilight covering the land she herself could attest to, the rest was speculation and rumors that had circulated at the time.