A cut above Eubank Jr's right eye sustained in the third round hampered him for the remainder of the contest and though his record of never being stopped in the professional ranks continued, the judges awarded the fight 117-112, 116-112 and 115-113 in Groves' favour.
Groves will now tackle either Callum Smith or Juergen Braehmer in the final for the inaugural Muhammad Ali Trophy in June.
Eubank went the distance against Kamil Kulczyk of Poland and knocked him down in the penultimate round before earning a 40-35 points win.
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Eubank Jr. somehow felt it was close, but make no mistake he did not fight his fight.
The two Britons meet in one of the most highly-anticipated British boxing match-ups in years, with two world titles on the line.
However, it's the Groves vs Eubank Jr fight boxing fans will be most excited about, and while tickets for the showdown at the Manchester Arena are now sold out, it's easy to watch all the action at home.
"He didn't lie when he said he would grit it out", Groves told ITV Box Office. "I dropped him at least once but it didn't count, which was dubious".
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'It was about who wanted it most and I obviously wanted it most'. I've boxed on with cuts, broken jaws, everything. "I'm going to help him on that path".
Eubank Jr's father offered a frank assessment of his son's performance.
It was the challenger who suffered though, an accidental head clash opening a sizeable cut on the side of his right eye.
Eubank touched down at one point, but it was not ruled a knockdown. Jesus, I wish more MMA was presented like this.
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Eubank Jr's cut was again opened up and the front and back of referee Michael Alexander's shirt was left caked in blood, with the IBO champion beginning to tire as Groves hovered over him looking to finish him off. I think his weakness is his stamina issues whereas Eubank's strength is his stamina.