This is with master. This does actually happen when trying to generate an OpenPGP public key for NetKey card keys with gpg --quick-gen-key --yes email@example.com card where this makes gpg/pinentry ask for the card that is already inserted, but it's easier/faster to reproduce as follows (the first few SCD commands may not be necessary):
Plug in card reader (I have an IDENTIV SPR332 V2) and insert NetKey card. Then run
$ gpg-connect-agent "SCD SERIALNO --all" /bye S SERIALNO 89490173300026616520 OK $ gpg-connect-agent "SCD LEARN --keypairinfo" /bye S CHV-STATUS -4+0+-4+0 S KEYPAIRINFO 39400430E38BB96F105B740A7119FE113578B59D NKS-NKS3.4531 sa - rsa2048 S KEYPAIRINFO 42C3CA6F9D7A725A59DDE06B16B61E88C62777C4 NKS-NKS3.45B1 e - rsa2048 S KEYPAIRINFO 20E7CB1D5299669CABF29B103C692AB34CB03528 NKS-NKS3.45B2 e - rsa1024 S KEYPAIRINFO A69B0D3796EE33E4426E5CE4B6BEEE5F1209FBA4 NKS-SIGG.4531 se - rsa2048 OK $ gpg-connect-agent "SCD KEYINFO 39400430E38BB96F105B740A7119FE113578B59D" /bye ERR 100663323 Not found <SCD>
Maybe a similar fix as for T5150 is needed.