When using a stack of 4 dark oak logs on my crafting table, I could only get 4 planks at a time and upon taking them I still have the 4 dark oak in my inventory. I tried it with different log types in different quantities and had the same issue.
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This is a known bug with the crafting grids. Will likely be marked as a duplicate soon.
Also, it matters where you place things in the grid. For the Sugar Cane into paper, craft using the top row and not the middle or bottom.
For the planks, I'm pretty sure if you use the top left corner in the 2x2, it should work normally.

Thank you for your report!
We're actually already tracking this issue in MC-271398, so this ticket is being resolved and linked as a duplicate.
That ticket has already been resolved as Fixed. The fix for this issue will be included in a future snapshot or release of the game.
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This bug also includes crafting paper from sugar cane, the sugar cane is not consumed and only the minimum amount of paper is crafted. Cannot craft maximum amount of paper.