I think you have two separate issues Steven. You probably need new intake gaskets; that is usually the cause of the first set of codes. But check all connections from the air filter to the throttle body and hoses that connect to the plastic intake.
The C0561 should have a symptom code to go along with it, 71, 72 or 74, telling us the why. It may be related to P0701. The last one is not in my shop manual.
P0701 says it sets if ALL pressure switches do not indicate pressure at start up. The code goes straight to history and does not light up the CEL, it clears after 40 warm up cycles without failure again.
Check this out:
DTC P0701
CIRCUIT DESCRIPTION
The transmission control module (TCM) monitors the status of the pressure switches at start-up, in order to
detect the presence of hydraulic pressure.
DTC P0701 is a type C DTC.
DTC DESCRIPTOR
This diagnostic procedure supports the following DTC:
DTC P0701 Transmission Control System Performance
CONDITIONS FOR RUNNING THE DTC
The components are powered and ignition voltage is greater than 9.0 volts and less than 18 volts.
Engine speed is greater than 200 RPM and less than 7,500 RPM for 5 seconds.
CONDITIONS FOR SETTING THE DTC
DTC P0701 sets when the TCM detects the following conditions:
Transmission fluid temperature is greater than -25°C (-13°F).
All pressure switches do not indicate pressure at start-up.
Engine speed is greater than 500 RPM for 6 seconds or 400 RPM for 15 seconds.
Forward or REVERSE range is selected.
ACTION TAKEN WHEN THE DTC SETS
The TCM does not illuminate the malfunction indicator lamp (MIL).
DTC P0701 is stored in TCM history.
The TCM inhibits torque converter clutch (TCC) engagement.
CONDITIONS FOR CLEARING THE DTC
A scan tool can clear the code from TCM history. The TCM automatically clears the DTC from TCM history if
the vehicle completes 40 warm-up cycles without failure.
DIAGNOSTIC AIDS
Inspect the wiring for poor electrical connections at the TCM. Inspect for the following conditions:
A bent terminal
A backed-out terminal
A damaged terminal
Poor terminal tension
A chafed wire
A broken wire inside the insulation
When diagnosing for an intermittent short or open, massage the wiring harness while watching the test
equipment for a change.
You may have to drive the vehicle in order to experience a condition.
DTC P0701 may be logged if a forward or REVERSE range is selected immediately after the engine is
started, and before the TCM detects pressure at the switches, 2-6 seconds after the engine starts.
A plugged control main filter may cause DTC P0701 to set.
There's a lot more to test with the TECH2 and it may be related to the P0704 code too.
You can see this stuff at AllDataDIY with a paid subscription. I use this and the factory shop manual, redundant but helps me move around how I like.
Did we talk about your transmission temperature? I've been helping with so many problems lately, they're starting to blend together!