all great advice above…
I think the most common ‘issue’ I see here is new users expecting the Pyramid to work like something the have previously used… all sequencers work differently, have a different ‘workflow’ - so its important to understand the Pyramid’s design and work within its ‘constraints’ … rather than trying to make an apple from an orange… this way you’ll be able to take advantage of its (many) unique features rather than wondering why its missing x/y/z.
(in fairness, this is a common mistake, and not unique to the pyramid … that and not reading the manual )
the manual is very ‘detailed’ but perhaps not the easiest of read (its not a novel, rather more reference text) … so id check out a couple of youtube videos, loopop’s I think is (as always) excellent.
then go thru the manual, but your aim then is not to memorise settings/features, but rather make a mental note of what (features/settings) exist… so that later when you need them, they trigger that memory.
thats what i do , I don’t remember everything, rather I have a good idea of what’s possible, and will check the manual if I cannot remember the exact details.
also the forum is a a great source of common issues/misconceptions etc… in fact, this is it main purpose - to let the community help one another use the pyramid.
I think the difficulty with the pyramid is its extremely flexible, but the issue is, if you read the manual without a ‘purpose in mind’, you see lots settings and features - its not clear when you would use them.
later… you are trying to do something (so have a purpose!) , but have forgotten what’s available, or perhaps don’t see how a setting/feature might relate to what you are doing.
… thats when searching the forum is a great resource
as for actual details that confuse most…
as @OxOnFord mention, note and pattern lengths are probably the most confusing at first, and how these interact with zoom level. its a powerful concept but one that doesn’t appear on many sequencers (see first point ) - some good forum threads on this esp. about setting pattern lengths.
similarly, the fact that polymeters and polyrhythms are at the heart of the pyramid, so a lot of things about pattern length and pattern/sequence triggering are tied up with synchronising these - a lot of ‘settings’ are related to this (again pretty unique to the pyramid)
there are a few good forum threads on this.
note: the last two are probably ‘advanced’ concepts, you don’t need to worry too much about initially but are good to have in the back of your mind, so when you come up against them… you ‘know’ they exist.
midi sync is common question, check out midi menu settings its all there,
midi input channel is a very common question - look up omni mode - multitrack bank
of course, everyone is different, so im sure what we try to predict will the ‘gotchas’ is going to be wrong, only practice/using will really help… but hey ho, we are here to try to help