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That is fair enough. I'd argue a 100% perfect runthrough of the game is the canon of the story, considering all 99 Mudokons (or now 300) are present in the final FMV of the game (never confirmed, but heavily implied). But as you say, we can each have our own interpretation of the canon. Apologies if I was rude earlier too, I came across waaaay more harsh than I meant to. Wonders of the web, eh. 
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That's all good, brother.

And I do appreciate the differing interpretations; it's always interesting to see how someone else interprets something that—in my mind—is set in stone.