The bottles were sealed spring water that were in the trunk for about 2 months. They were sitting in the "well" of the spare tire in the trunk. They were not rolling around so it must have been slight shifting and vibration that caused the pin sized leaks.
I do not want to store water that does not come prebottled because where I live it would last only a few days before it goes bad. I do not want to use water treatment for this water.

From now on I will store the bottles a little more secure and change them more often.

Other useful items that were in the trunk;
20' 8mm old climbing rope-this stuff will tow almost any vehicle.
Thermo lite Bivy
Extra fleece jkt
Spare shoes ( I wear flip flops a lot and wory about being without good shoes after an Equake.)
2 road flares
2 bunji cords
work gloves
Empty 32oz Nalgene

Not in trunk but still in car;
Doug's PSP in center console
SAK tinker
6 MP1 tabs in glove box

Along with my EDC the car has some useful stuff.