1. TxOut scripts are not evaluated until they are spent-- those are probably unspendable TxOuts.
2. The inputs must be valid (you're looking at coinbase txns with no inputs though). Again, TxOuts aren't evaluated until they are used as inputs in another transaction; as long as they deserialize properly they'll be accepted.
3. I don't know of any other bugs in the scripts ops, but I don't know that anybody has written thorough unit tests for them (anybody looking for a good get-your-feet-wet project that could be a good one to tackle; there are already unit tests for CHECKMULTISIG in the repostitory....).