Ok to answer your question and show off more possibilities and mod interactions, this is my updated setup. It is a mix of MechTransfer (MT) and Magic Storage (MS) with a tiny bit of Project__Logic (PL).
At the very top-left we have the MS network that I call the "Vault" (core painted black). Basically my chest room with all my stuff. A bit of MS pipe (painted black) goes down from that room to a MS-MT interface. There are two MT pipes connecting to that interface (The MS-MT interface can be seen as a chest so yes the two pipes from it are separate):
On the left the pipe takes extractable items from the vault and sends them to the extractinator when I push one of the two buttons connected to it by red wire. That wire goes through the extractinator's injector which makes it repeat until there's no more items to extract.
On the right, the black painted MT pipe is what I call the "Main" pipeline, where everything that is collected is fed through it to end up either in the vault or in other systems depending on filters. The throughput in that pipe is from the bottom up:
On the bottom-left, we have statue farms, simply statues powered by a bird engine in lava with an Inlet to collect the loots and send them to the black pipeline.
Then branching from the right we have the lime pipeline with a relay that prioritize stuff to go to that pipeline if possible. This pipeline takes the items from the categories you see on the column of whitelists and sends them to the lime-painted MS network. Note that there is a money blacklist to the entry of that line because the weapons filter considers (some?) coins as ammo and lets them through. Because there are some weapons that do that.
This is a separate MS network as you can see by the core being here. I call it the "Loot" network. This lime pipe has itself a red branch for the stuff i want to trash into lava with room for more whitelists. For now it's just the javelins from the Hoplite statue (they have no gold value).
Just to the right of the vault there is a MS Remote Storage access to get the stuff from the loot network and an extractor+outlet connected to a 1s timer to "shower me" with items while I sell them to the merchant who lives right there.
Now there is a bit of stuff I skipped and that is the purple pipe extracting from the purple MS network. That is for future projects. It will be the receiver for farms i'll build all over the world. The extractor is connected to a PL radio link that'll get activated when items are picked up by the farms into a remote access to that purple MS network. The two PL delayers triplicate that signal with a delay because I want to be sure that stuff gets extracted from that network as fast as possible. For now I just used it to test the filters.
Right next to the extractor is also a bomb statue connected to a 5s timer. It makes a bomb every 10s into my vault. It ends up making a lot of them but that's cool because that'll make clearing areas and digging hellevators simpler.Then the last branch taking stuff from that black pipeline is for the coins. For now they just go into a chest but I intend to plug a money compactor to it and maybe setup a separate MS network similar item shower to shower me in gold when I come back to base.
And that's it.
Basically, the black pipe sends stuff through to the vault unless they are first picked up by the loot (lime) and gold (yellow) networks. Everything else sends stuff into that pipe. Only the extractinator and bomb generator get to go after the loot network because they only make stuff I want into my vault or gold.
Later I may also want to setup another room with autocraft factories for potions and stuff like that. I'll have to check if the autocrafters are able to take stuff from the MS-MT itrerfaces.
All of this is still only pre-hardmode. I'll hook up biome monster farms and various plant farms (probably big stripes of blocks to randomly spanwn stuff because planting is not automatable) to the purple receiver network later. There's also a blue mushroom farm on the right of that setup waiting that I get belts to get the stuff to an inlet. PL will also allow me to periodically (like with a daylight sensor) pop on and off the actuators from plant farms to collect stuff using delayers.
Edit: Wrong color text for the javelins. It's a whitelist. The red wire going to the PL radio link and delayers should be moved to avoid the MS relay because it creates a signal loop.... Which I think is actually preferable to the delayers! This bit got much simpler: