"You pointed out flaws in using images to communicate. We were attempting to illustrate that speech and writing have similar flaws to the Geth, who primarily communicated over networks."

Legion isn't sure whether it is easy or possible for the Smeargles to learn more abstract and symbol based languages. They've seen them struggle with writing outside of copying the words of others--this image of the 'meowth' is the most coherent thing they've seen them do of their own volition.

They also never said the Geth way of doing things was ideal to anyone but the Geth, hence qualifying their mention of inefficiencies with 'to us'. Networked communication, at least the way Geth do it, is unpleasant for organics without a filter or proxy. It also limits individuality, a quality which Legion has discovered holds many advantages, even if they don't want to say so.

They headtilt. "We did not intend to cause offense." Which is like, the worst thing to say here, but they're not really understanding why Sam thinks this is insulting, or that they want him to change when they were just trying to make an, admittedly imperfect analogy.