Right,

after having my car nearly 6 month I have realised that If I do ever breakdown will they just come out to me if I ring them and give them the car details or do I have to register in some way? All I got in the pack from skoda is a card saying skoda AA assistance and a telephone number.

waht do Ido to get me and my car registered with the AA to recieve the free 3 years roadside cover?

you dont have to worry because the cover is registerd to th car not the owner

As above, no need to do anything.

I had two flat tyres recently and they were very helpful with organising recovery etc.