Flop? Seeking advice!

     Wellllll, I wouldn't exactly say that the girls are thriving.  They are trying so hard! But its been a rough spring for them.  We just had a fluke snowstorm (for those of you who don't live here in CO), which was sandwiched by four days of cold, hard rain.  This is a sample of some of the strange weather we have had this spring, and I can only assume that the weather has taken its toll on the girls.  After each rain, I've gone out to the hive and seen tens to hundreds of dead bees around the hive.  And then of course there was the frame fiasco that set them back in the beginning.  When I checked the hive a week ago or so I could see that the bees that had started to build some comb in between the frames and not just down the foundation.  As a result, I simply wont be able to remove and manipulate those frames.  So, at the time I had two medium boxes and this was all in the top box; so I removed the bottom box which had no bee establishment in it yet, fixed all the frames that needed reinforcement and placed it on top of the box with the fixed frames.  That way, the top box will hopefully have better frames, the bees will build correctly, and I will be able to manipulate that box a bit more.  So I've been messing with the hive quite a bit and even though I was trying to make it easier on the bees, I feel that I've been meddling a bit too much.
      Lastly, my dad pointed out that the strip mall behind my house may be spraying pesticides.  That didn't occur to me at all!  We placed the hive right against our back fence which abuts the strip mall.  I chose that location because I wanted to give my neighbors some space from the bees and the hive is right next to a lilac hedge, which I thought they would like in early spring.  BUT I did not even think about the fact that the commercial space behind us may spray their grass.
     So, as of yesterday there was very little action in the hive.  I took a quick look inside and saw comb but no brood from what I could see from that angle.  I decided I would give them a couple of sunny days to recover before I poked my nose in for a closer look.
     What I SHOULD be seeing is comb being built, brood being laid in a very organized pattern, both drone brood and worker brood, and I should obviously see the queen (although if you don't see your queen, the presence of those other things will insinuate that she is alive and well).  I'm worried that what I WILL see is a bunch of worker bees doing the best they can to survive their colony, and perhaps no queen, or a failing queen.

Any advice???  How do I save my bees???