Check your motor mounts. Replace them if worn out. Your everything will thank you. I just replaced the two torque mounts on my 98 Civic 5-speed and shifting is so much smoother, as is decelerating. Before the car would shudder and lurch when starting out and shifts to 2nd were neck-snapping, but now all is buttery-smooth. I’m pleased, and it was a very easy job (two bolts and a nut for each side, and loosen the two upper motor mounts).