I would take them back, especially since you have pictures to show the condition they were in before you sent them in to be cleaned. The store clerks sound a little clueless; the places I take mine into take a picture of the bracelet while you are in the store, show you the picture and I take one on my phone so I can see they put the charms back on in the correct order if there are pearls on it.I had a pretty bad experience with my bracelets and I will never get them cleaned at the Pandora shop again. The first time I did it was great and they looked wonderful afterwards. But the second time I had them washed there just a couple weeks ago, they came back looking horrible. When I gave them, it was a new girl and she had trouble getting the clips off and got the safety chain stuck. Then she asked another girl for help counting the beads and I felt like I wanted to just take them back but I figured whatever she is just learning. But then when I went to pick them up the next day, 3 of them were all stuffed into one bag and the other 2 were missing! They could not find them and they pulled out a big drawer of random bracelets and asked me to describe mine and show them pictures, which thankfully I had on my phone! Then I looked at them and they looked worse really. They honestly looked worse than when I gave them in and my square shaped beads now look very used. I was really just extremely relieved that they found my bracelets that I did not even think to say to them that they messed up my bracelets. But after getting home I really examined them and there is a scratch in the enamel of my love letter bead and a few others are really banged up. I wanted to go back and really make a fuss but my husband told me it was probably futile because what are they going to do ? Give me new beads? No. If anything I should have said something when I picked them up so. I will never give anyone my bracelets to clean again! Even if I have to buy 50$ worth of polishing cloths I would prefer that.
Different stores use different cleaning methods but it should be based on what is on the bracelet, not a one-cleaning-fits-all method. I have had plain silver bracelets cleaned in a tumbling machine, while others are cleaned with cloths, and a dunking. Ask what they use to make sure they know what they are doing. Some SA's are sloppy or they haven't been trained properly or they are lazy.