Exactly. That rule is all about registration of players with the FL, nothing about legal validity of contracts of employment. And nothing to say that the same contract couldn't be resubmitted at a later date if the first deadline was missed.
It's all a bit confusing, but I interpret it as:
- Rooney had a loan contract for 1 year from August 2012
- It was a term of the loan contract that he would be offered a permanent deal for two years on 1 July 2013
- On 1 July 2013 he was offered a permanent deal (presumably automatically, by mechanism of the term of the loan contract)
- On 6 July he accepted the deal
You would think there would be some kind of deadline on the offer of the permanent contract, otherwise he could have waited until he was 65 and used the money to supplement his state pension. Equally, the offer presumably had to remain open for a certain period of time, otherwise the board could have withdrawn it on 2 July 2013 - perhaps they did put a 5 day limit on it, but I still wouldn't see the relevance of rule 44.1.
You would think it would be a simple matter of reading the terms of the original contract and that there would be little room for debate, so I can only assume the contract is vague. Someone must have fucked up there.