After 16 years of Mountain biking I changed to road bikes. 2 1/2 years later I still get a sore neck if I ride in the drops for too long- Butt aches if I am on the hoods for more than an hour and the hands need exercise every couple of hours.

Best advice is to get a Pair of Cycling shorts- A pair of Padded gloves with padding in the right place and just keep riding. Should be OK for a 6 hour ride in about a years time.