Correct, I have a Blichman kettle which has a 90 degree elbow port similar to yours on the inside that goes just above the lower tier at the bottom of the kettle. With the whirlpool pump recirculating, a good portion of the break and hop matter does stay in the middle, but I do inevitably get some in the carboy, I've never had any off flavors or effects from that as far as I can tell. As others have discussed taking the pump fully apart, I have never disassembled my pump. I may be short-sighted and lazy but I am assuming the flush/recirc with PBW and then freshwater, coupled with 15 mins of boiling wort ahead of time both cleans and sanitizes my pump and hoses etc.
I use 3/8" tubing when I use my CFC for non-hopstand brews and 1/2" tubing with my pump for this recirc hopstand setup. The 3/8" tubing fits perfectly over the outside port on my kettle and clamps nicely onto my CFC, the 1/2" requires a clamp for all 4 connection points because I got the 1/2" QD's for my pump. Also, I got the Silver Serpent chiller free from our hosts as part of a sale a few years back, I may upgrade that eventually for better cooling speed, but it works well despite being undersized for my kettle.
When I eventually upgrade to 10 gallon batches (I am TOTALLY jealous of @loopie_beer's new rig ...someday ), my next kettle I will spec out with a whirlpool port specifically designed for this purpose, but this was a nice way to modify and utilize my existing equipment with a few additions.
Here is a pic of my brewing assistant helping with the transfer to my BMB, with a view of my HIGHLY engineered custom lid for my kettle.
Also, FWIW, I used nearly a full lb of Citra pellets in my last Pseudo Sue clone attempt and didn't have any clogging issues despite the ridiculous amount of hops in the kettle. YMMV.