The crystals may be an indication there is still infection or it might be a hereditary kidney stone/crystals problem requiring a special diet.
Getting the crystals analyzed to find out what kind they are may provide a clue as to your next steps.
You can read up on stones and crystals here
www.marvistavet.com/html/bladder_stones.html
including one problem seen in dalmatians especially.
You might want to check for tick carried diseases as they can cause kidney issues too.
And if the dog is partly shar pei for example there is a problem called renal amyloidosis which can lead to renal problems. You can read about effected breeds here and what the disease is about too
http://www.upei.ca/~cidd/Diseases/urogenital%20disorders/familial%20renal%20disease.htm
If you can get kidney function back working properly then the prognosis is good. If the kidneys fail in some areas you can find vets who do kidney transplants but its expensive.
Hope this helps you!
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