The 2016 Lincoln MKS shares the Ford Taurus platform and offers a reliable 3.7L naturally-aspirated V6 or a powerful but problematic 3.5L EcoBoost. The EcoBoost variants suffer from catastrophic engine failures due to cooling system defects, while both versions experience transmission cooling and mount issues inherent to the 6F50/6F55 gearbox.
EcoBoost Carbon Buildup and Intercooler Icing Leading to Catastrophic Engine Failure
Common · high severityTypical onset: 60,000-100,000 mi
Symptoms: Loss of power under acceleration, Check engine light with misfire codes, White smoke from exhaust after cold starts, Knocking or rattling from engine, Complete engine failure with coolant in cylinders
Fix: The 3.5L EcoBoost suffers from intercooler condensation that pools and causes hydrolock on startup, bending connecting rods. Combined with direct-injection carbon buildup causing hot spots, this leads to head gasket failure, cracked pistons, and scored cylinder walls. Full repair requires short block replacement or complete engine rebuild. 18-25 labor hours for short block, 30+ for full rebuild.
Estimated cost: $8,000-15,000
Transmission Oil Cooler Line Corrosion and Internal Cooler Failure
Common · high severityTypical onset: 70,000-120,000 mi
Symptoms: Transmission fluid leaking near radiator, Pink milkshake fluid in coolant reservoir, Harsh or erratic shifting, Transmission slipping or going into limp mode, Engine overheating
Fix: Steel transmission cooler lines rust through where they connect to the radiator-mounted cooler. Worse, the internal cooler can fail, mixing coolant and ATF, which destroys the transmission. Requires cooler line replacement (2.5 hours) or if contamination occurred, complete transmission flush and often rebuild (12-16 hours). Many techs now bypass the internal cooler entirely and add external cooler.
Estimated cost: $400-800 for lines only, $3,500-5,500 if transmission contaminated
Transmission Mount Failure (Rear Engine Mount)
Common · medium severityTypical onset: 60,000-90,000 mi
Symptoms: Clunking when shifting from Park to Drive, Excessive vibration at idle, Shudder during acceleration, Visible sagging of transmission tailshaft
Fix: The rear transmission mount (which is really the rear engine mount on this transverse setup) fails due to the weight of the 6F transmission. The liquid-filled mount separates, allowing excessive drivetrain movement. Replacement requires raising the engine/transmission assembly. 2.5-3.5 labor hours.
Estimated cost: $350-600
PTU (Power Transfer Unit) Fluid Neglect and Failure on AWD Models
Occasional · high severityTypical onset: 80,000-120,000 mi
Symptoms: Grinding or whining noise from front of vehicle, Vibration during acceleration, AWD malfunction warning, Burning smell, Metal shavings in PTU fluid
Fix: Ford lists PTU fluid as 'lifetime fill' but it breaks down by 60k miles in real-world use. Overheated fluid cooks the bearings and clutches inside the transfer case. Once grinding starts, internal damage is done. PTU replacement requires transmission removal on some procedures or can be done with trans in place by experienced techs. 6-10 labor hours depending on method.
Estimated cost: $1,800-3,200
Water Pump Failure (3.5L EcoBoost)
Occasional · high severityTypical onset: 70,000-110,000 mi
Symptoms: Coolant leak from front of engine, Whining or grinding noise, Engine overheating, Steam from engine bay, Coolant warning light
Fix: The internal water pump on the EcoBoost is driven by the timing chain and fails without warning. Coolant leaks into the engine oil or externally. Because it's behind the timing cover, this is a major job requiring timing chain removal. Always replace timing components, guides, and tensioners while in there. 8-12 labor hours.
Estimated cost: $2,000-3,500
Fuel Filter Clogging (In-Tank)
Occasional · medium severityTypical onset: Not mileage-specific, fuel quality dependent
Symptoms: Hard starting after sitting, Loss of power during acceleration, Sputtering or hesitation under load, Check engine light with fuel pressure codes, Stalling
Fix: Unlike older vehicles with external filters, the MKS uses a lifetime in-tank sock filter that can clog from contaminated fuel or tank sediment. Many owners never change fuel until this happens. Requires dropping the fuel tank and replacing the entire pump/sender assembly. 3-4 labor hours.
Estimated cost: $600-1,000
Door Latch Actuator Failure
Occasional · low severityTypical onset: 50,000-100,000 mi
Symptoms: Door won't open from inside or outside, Double-latching issue (have to pull handle twice), Door ajar warning with all doors closed, Power lock cycling repeatedly, Door won't lock or unlock
Fix: The electric door latch actuators bind up or fail electronically. This is a Ford-wide issue across platforms. Replacement requires door panel removal and latch replacement. 1.5-2 hours per door.
Estimated cost: $300-500 per door
Buy the 3.7L NA V6 version if you must have one — avoid the EcoBoost unless you enjoy expensive surprises and have a $10k engine-rebuild fund sitting around.
AI-assisted summary drawn from NHTSA recall data, our labor-times database, and platform knowledge. Not a substitute for a pre-purchase inspection on a specific vehicle.