Say, I am using MultiSig2 & MultiSig3 for cold storage, while using MultiSig1 for regular usage. Will the cold storage be secured in that case?
Do I see it correctly that your 6 multisig scripts only differ in the order of the key? Then no, your cold storage isn't secure.
First everyone, who sees one of the spending transaction can try putting the keys in different order and immediately find your other addresses.
Second you need at least two of your keys to sign MultiSig1 for regular use. Everyone who gets these private keys from your computer can then spend your "cold wallet". Your scheme may confuse some attackers but it doesn't give any security.
To call something a cold wallet, the private keys should never be on an online computer and not be loaded on a computer for "regular use".