This bug is literally the worst for your auto pumpkin farm or melon farm and the squid farm which the design is from silentwisperer, the famous youtuber for bedrock and the one who is showing all features and the bugs. But this bug is founded on the release of 1.16 and it is needed to be fix because this bug is super annoying which is why I reported this bug. Mojang pls resolve this bug now because i am so tired to put hopper minecarts on each farm. Not only hopper minecarts but also all types of minecarts!!!!!!
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No they didn't despawn. the game literally deleted the minecarts when the server crash or sometimes when you leave the world. More bugs will be reported soon.

Thank you for your report!
We're actually already tracking this issue at MCPE-21416, so I will resolve and link this ticket as a duplicate.
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Does this reportΒ MCPE-21416 explains why the minecarts are despawning randomly?