Circumstances change?
Whilst I can see that there is an element of Mr Jones looking to make money from the domain name by selling it to Apple, if he is actively using it/them in a way whereby the domain name is relevant to the site contents, then how can Mr Ive registering a TradeMark 4 or more years after the event be grounds to have the domains taken away from Mr Jones. (I know that is a lot of Mr's but I'm trying to stay polite here).
What Apple appear to be doing is a reverse of the normal 'squatting' whereby they are creating a Trademark to steal ownership of an existing domain and can be no more acceptable than creating a website to take advantage of an existing trademark.
If I were Mr Jones, I would lodge a protest about the Trademark request as it infringes his websites and could cause confusion.