Hmm, this sounds like a regression, and I do such a lot myself (especially KIS boxes full of useful small parts), but I haven't had time to do much playing lately, so failed to notice
This is something I want, too, but the UI is an issue (getting a good parts list in flight mode... (and as EL is GPL, I have to be careful about using other people's code)).
Odd, it's working here (just now tested both oribital doc and micro pad).
Actually, the survey station is the builder, and the survey site (stake set) is where the build will be placed. That is, you can change where the build will be placed by choosing a different survey site as much as you want up until you actually finalize the build. Part of the reasoning behind this is I did not want to have to deal with locking down survey stakes that are used in a build.
As for the default naming scheme... hmm. It should be easy enough to add a default name to each pad type (I might even make it a part config item (I can think of a certain mod author or two who might appreciate that)).
As for extra options for EL, I do have plans for difficulty settings, but haven't had time to work out the details, let alone implement anything. That said, the whole point of the recipe system (most of which is hidden away unless you use something like that USI patch for EL, or maybe WBI (don't remember if @Angel-125 did special resources for EL builds)) is precisely that: difficulty settings for required build resources. Smelting recipes was actually a "hey, I can do that now" thing (and proof of concept for eventually implementing the smelting system outlined in the Landis paper (links in the first page or two of the topic)).