Sort of. The issue seems to be if you move your mouse at any point during the mining of a block, the server gets confused and doesn't think you've actually mined the block. The solution is not to move your mouse while mining. For faster things, like digging dirt with a diamond shovel, it's best if you click for each block you want to remove rather than holding down the button.
After hearing about this "solution" on the minecraft forums I haven't had much issue with respawning blocks.
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