Is there a limit on how many Dragon Souls you can store? A couple of times after a battle, the dragon does not give me a soul and doesn't even disintegrate. Most times this happens I'll have at least 1-4 souls in my inventory.
Limit to the number of Dragon Souls you can carry
the-elder-scrolls-v-skyrim
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Best Answer
If a respawned Dragon is killed again (as in, those that rest atop Word Walls outside of dungeons), it will not yield any Dragon Souls.
(source: elderscrolls wikia)
It's possible you killed one of these respawning Dragon. Do you remember if this happened at a World Wall?
There's also a link of known bugs on that page.