From Rock Creek Junction (MP 276.8/444.8), the KCT line has a connection east-northeast to the former ATSF line coming off the flyover at Congo (MP 444.2), where there are are crossovers. The main line continues east-northeast as Two Main Tracks, CTC, with a speed limit of 70-65 past Sugar Creek (MP 442.6), where the line turns northeast along the south bank of the Missouri River, and there is a spur south-southwest into a now-closed refinery. There is a grade crossing, a signal bridge overhead at Cement City (MP 440.8), a Missouri Portland Cement plant where there is a spur on the north side and a pipeline bridge overhead, and the line turns east, past two sets of freeway bridges overhead just west of Courtney (MP 439.4), where the speed limit is 79-70, northeast and then north-northeast past crossovers at Eaton Junction (MP 436.5/276.0), where the UP (ex-MoPac) River sub. line leaves to the east and then south, and the former Santa Fe line leaves the river.
East of the Kansas City urban area, the train traverses the Missouri farming country, often with trees bordering the line, single track, CTC, speed limit 30 mph at the junction rising to 50 mph thereafter, heading east, and then south, past Cobbler and Ripley, south-southeast and then east-northeast, past the 9,204 ft. siding at Lake City (MP 269.6 - MP 267.8), Buckner (MP 263.9), where there is a spur for Bean Lumber and CTC ends in favor of Track Warrant Control, Automatic Block Signals, and a detector at MP 263.8, turning curvily east past LeVasey, Napoleon, where the Missouri River comes alongside to the north, Waterloo, the 7,788 ft. siding at Renick (MP 256.6), a jog southeast and then east again, Wellington, a turn north and then northeast, following the riverbank, the 11,346 ft. siding at Myrick (MP 247.6), where an erstwhile MoPac line once left to the east, and a detector at MP 245.9.
The line turns just south of due east, following the river, past Northrup, where it turns curvily east, Dover, where it turns northeast and then curvily just south of due east, still following the river, the 9,616 ft. siding at Hodge (MP 230.6), Waverly (MP 224.5), where the speed limit has fallen to 40 mph, and a detector at MP 222.6, where it leaves the river behind, turning south past Grand Pass, east past the 9,184 ft. siding at Malta Bend (MP 215.2), where the speed limit is back to 50 mph, a detector at MP 211.6, and Blosser (MP 211.1), curvily east-southeast past Stanhope, south past a flat crossing with the Kansas City Southern (former Chicago & Alton and CB&Q) and the 7,920 ft. siding and junction with the 2-mile Marshall Industrial Lead on the west side at Marshall (MP 202.1), where the speed limit has fallen to 45 mph, to a detector at MP 199.2, and curvily southeast past Willow Springs and the 6,635 ft. siding at Napton (MP 195.0), where the speed limit is back to 50 mph.
There is a turn curvily south-southeast, past Nelson, east and then south-southeast again past the 8,215 ft. siding at Blackwater (MP 186.9), where the speed limit has fallen to 45 mph again, and a detector at MP 184.2, curvily east past the 12,830 ft. siding at Lamine (MP 178.4), where the speed limit is back to 50 mph, north, east along the south bank of the Missouri River again, past a detector at MP 171.0, where the speed limit has fallen to 45 mph, the 6,562 ft. siding at Boonville (MP 170.8), where an erstwhile M-K-T line once bridged overhead (And over the river) and an erstwhile MoPac branch once headed south, a turn east-southeast, away from the riverbank, past Overton and a detector at MP 160.9, where the speed limit is back to 50 mph.
The line turns southeast past the 9,140 ft. siding at Wooldridge (MP 156.7), the riverbank returning, and Lupus, south-southeast, with the river departing and then returning, and then south past the 9,495 ft. siding at Sandy Hook (MP 143.8), with the riverbank departing again, and just east of due south past a detector at MP 139.0, where the speed limit has fallen to 40 mph and Marion, where the river returns, and east-southeast, with the river departing again, to River Junction (MP 127.5/128.0), where the speed limit is 45 mph at the junction, the Sedalia sub. trails in from the west on the south side, Two Main Tracks, CTC, begin, the speed limit rises to 55 mph and the line continues east-southeast, along the south bank of the Missouri River again, past CP M 126 (MP 126.4), where the speed limit is 40/35, and Jefferson City (MP 125.5), where there is a passenger station (platform and brick depot on the south side), the rump of a former MP line trailing in from the west (on the south side), a yard (at least three tracks), and crossovers.