Of the two the AMD machine is by far better. It's the latest AMD socket AM2. And even the older s939 AMD dual cores always stomped on the PD's anyway.
The Intel system is using an older board that does support a Core2 at all. And the PD's are known to have heat problems.
Choice #2 without a doubt. It's worth the extra $60
Ultimate Edition Linux
AMD FX 8350
Asus Sabertooth 990FX R2.0
24GB GSkill/Corsair 1866MHz
EVGA GTX 970 SSC/ GTX 650 (PhysX)
SSD - OCZ V4 128GB/Kingston 120GB
HDD - 3TB/2x 750GB/500GB
CM HAF 932 Red
CM Hyper 212 EVO w/2x 120mm Red
Logitech X540 5.1
2X Acer 23" LED - Surround: 3840x1080
Microsoft Sidewinder x4 KB
"The significant problems we face cannot be solved at the same level of thinking we were at when we created them."
- Albert Einstein