is it possible that when you sealed it there just wasn't enough oxygen in it to support the critters? freshly transplanted plants can go into a "construction" mode, consuming internal food resources for a while while they deal with their sudden damaged root problem; they may become net oxygen consumers for a while before they settle down, which in a sealed environment works out badly for the other oxygen users. i would suggest getting the plants all set up and stabilized for a week or so before adding the shrimp and sealing it, and leaving a little more air space above the water.
a small piece of cuttlebone will buffer the calcium levels for a long time, although it isn't exactly pretty floating around, or even after it sinks