Not sure what BE and SE is, maybe I'm dumb, but here are some of my favourite well-plotted ones. Some are well known so maybe you'vre dead rhem but hopefully there's a few you like :)
http://www.mangago.me/read-manga/shimanami_tasogare/
http://www.mangago.me/read-manga/life_senjou_no_bokura/
http://www.mangago.me/read-manga/iberiko_buta_to_koi_to_tsubaki/
http://www.mangago.me/read-manga/hishakaishindo/
http://www.mangago.me/read-manga/koimonogatari/
http://www.mangago.me/read-manga/rain_again/
http://www.mangago.me/read-manga/doukyuusei_nakamura_asumiko/
http://www.mangago.me/read-manga/tasogare_outfocus/
http://www.mangago.me/read-manga/given/
Forgot this lol: http://www.mangago.me/read-manga/dark_heaven/

Good plot BL which flawless seme, dumbass uke, extremely handsome characters don't get involved. Manga about two normal people fall in love and be honest, logical about their feelings. Like Hana wa saku ka :V And hope they don't have a BE or SE