was it ?

"Was it" is not a question. It is an inversion. (倒裝句)
Nor was it cheap 是一句倒裝句，等於 It was not cheap.

不用倒裝句寫法
The seafood stalls did not look fresh and it was not cheap.

Neither .. nor 是否定式，所以不用再加 not

Nor 之後須要倒裝，即主詞跟動詞掉轉，句子變成
The seafood stalls neither looked fresh nor was it cheap.

在句中 stalls 並不需要，省去更好。
The seafood neither looked fresh nor was it cheap.

Neither 也可以做倒裝句
Neither did the seafood look fresh nor was it cheap.

Maybe it means
The seafood stalls neither looked fresh nor... was it cheap?
If adding the punctuation as above, the speaker actually skipped the second aadjective describing the seafood stall. However he/she asked another question, asking the reason for not looking fresh.