Exactly. Note the emphasis I added to “for me.” You haven’t had decades of internal reinforcement that aNeMoNe is pronounced aNeNoMe. This would not be a word I’d recommend for you, or for others. Hence:
I’m speaking about how its easier and completely natural for me to use this word. Not for others to.
My point was that if you have an very strong and automatic association that happens to be a mispronunciation of what is technically correct, its fine to use. It will be much much easier than trying to overwrite years of habitual mispronunciation.
Associations are first and foremost individualized. As are some pronunciations, whether through habit, dialect, etc…
If you’re helping someone by suggesting words for their system, then obviously you should refrain from suggesting your own unique pronunciations as they won’t click for someone else, as I said:
I really don’t think that on an individual basis, there are unavoidable pronunciation problems. If you’re speaking in terms of creating a universally usable system, then sure, phonetic methods will not work in the same way for everyone.
For me, “LiCHeN” is pronounced “LiKe iN” so its clearly 572. This is actually the word I use. I would never read it as “LiTCH iN” so there is zero problem here for me. Some dialects drop or add R’s so its tricky to share and compare words for numbers with 4’s. This is a known disadvantage of phonetic systems, but the user can always customize the phonetic/number assignments to better fit their own language. No “Major System Police” will fine you for deviating from the “classic mappings.” 
I think this is really a matter of how you want to budget your time. If you use the majority of someone else’s associations, you’ll be spending more time reviewing and training them to make them reflexive. If you come up with your own, you may need more time to populate the list, but you will likely spend less time getting them to be automatic since the connections are already present in your own brain.
Maybe the best suggestion would be to try to meet somewhere in the middle. Go through each entry and if there is a reflexive association for it, put it in. If nothing pops into your head after 10 seconds or so, fill it in with a placeholder that you’ve found externally. Someone else’s words will take just as much time to learn as a word that took you 5 minutes to come up with. There is no pre-connected association for either, so you might as well spend less time populating the list.
Many times when you actually start training for recognition speed, your brain will make a snap connection in the pressure of the moment, so the process is one of pretty constant revision early on anyway.
