I think a compelling case can be made with the Ruins:
1. Chancellor is strictly better than Abandoned mine. It has "you may" so we can always just play one as $2 while the other is $1. Throne rooms, golems, etc. should not matter.
2. Necropolis is strictly better than Ruined village. +2 actions vs +1.
3. Festival is strictly better than Ruined market.
4. Great hall is strictly better than Ruined library.
There are plenty of other things that give the exact same benefit and give you more flexibility or additional rewards.
In like fashion, Farmland, ignoring price, is strictly worse than Province in hand. Province may activate other cards (Explorer, Tournament), but Farmland does not. Without price concerns, Farmland cannot become anything Province cannot. The only way to trigger an on buy effect is to Ambassador over two, which doesn't happen when you have only one in hand. Province is, of course, worth more VP.
Alchemist should be strictly superior to Laboratory aside from price concerns. It has the same effect, but might also be able to be top decked if the player desires it after having drawn and played a potion. Likewise Trusty Steed is strictly better than Laboratory outside of cost - you can always get Lab effect, but with a bonus action (+1 action) and more flexibility (you can choose to not get the +action and just do +2 cards/+$2).
Festival is strictly better than Necropolis as is University.
Outside of price, I believe Treasury is strictly better than Peddler - the Treasury does everything the Peddler does in hand, but you may choose to top deck it later (or not). Market would also be strictly better outside of universal edge cases.
Grand market should be strictly better than Market ignoring price.