Jaims,
I did a LOT of research into having our wedding at a villa. I LOVED LOVED LOVED the idea, but we decided against it for financial reasons and logistics. Each villa in Pedegral costs about $6500 more to have your wedding there (on top of the nightly rental fee)... That's a high location fee, but you can save costs on catering and decor because it's already so beautiful. My guests are all staying in the La Jolla area- which is close to San Jose del Cabo, and Pedegral is on the furthest side of Cabo San Lucas- about 35 minutes from where our guests will be. Another thing to consider is transportation to the villas- the roads within Pedegral are very windy, up and down a hill, depending on which side the villa is on (Pacific or Sea of Cortez). The guests would not be able to all drive to the wedding- they do not allow all those cars in there- and you would NOT want anyone to drive in this area who'd had even a sip of alcohol!
I visited 2 villas there, and looked at Clara Vista online... feel free to write me with any questions. If you can afford it, and can transport your guests to and from there- go for it- it is breathtaking!!! VERY European!