Starfox Adventures is a prime example of this.
The game was very well received when it released, with people praising the graphics and comparing the game to Zelda. It was seen as a worthy goodbye gift by Rare. Personally, I still think it's a great game. The graphics hold up well and the atmosphere and music are simply amazing.
However, after Starfox Adventures released Nintendo really butchered the Starfox IP. Starfox Assault on Gamecube was decent but not as good as Starfox 64. Starfox Command on DS was met with a lukewarm reception and Starfox Zero... yeah. So the tone around Adventures shifted. Instead of being seen as an adventure game (as stated in the title), people would claim "it's a bad Starfox game!" and even go as far as to say people back in 2002 were cheated because they expected this to be a traditional Starfox title, which is absolutely not true. I watched reviews of the game on YouTube a few years ago when I felt the urge to play it again and many reviewers were just going "no rail shooting, this sucks!" But everyone knew what the game was before it released.
People also compare it to a hypothetical, perfect version of Dinosaur Planet for the N64, even though we don't know what corners would have had to be cut before release if that version released. And they complain about Krystal's "sexy" design and her role as a damsel in distress - which no one gave a second thought to (*) 20 years ago... and even though no one says Peach getting kidnapped in Mario 64 or Zelda getting kidnapped in Ocarina of Time towards the end of the game devalue those games in any way.
So, I'd say Starfox Adventures is a perfect example of this.
(* I mean, people apparently did spend quite some thoughts on it, seeing as Krystal is some kind of furry icon. But the decision wasn't seen as controversial back in 2002. I can't remember it ever being mentioned back then.)
