RESOURCES WON'T INCREASE
* To find out about your current Storage Limits, hold the mouse cursor
To repair the Biospheres, you needed to extend the E.D.E.N. Farms to level 2, which you already did. Now, to rebuild the Storage Facility, you will need to raise all 6 Erythium Mines and all 6 Argon Extractors to level 2. Once resources cannot be stored due to lack of space, all production is converted to BC (at a rate of 4 resources for 1 BC).
I didn't quite got that food thing...