Tholozor

In your second attack, the Maverick was fired from well outside the keyhole, meaning although the seeker itself can see the laser before launch, it's losing it once it comes off the rail. Try to launch within these constraints as much as possible for any Maverick attack. (Image is referenced with the A-10, but the keyhole is still applicable)

Funny enough this has been brought up before a few years ago: 
 

Enable XR image processing by double-tapping the Expand/FOV button on the stick, and ensure the pod is in AREA or POINT track (processing takes a second or two). If the pod is slewed it will revert to normal until the camera is stabilized again, then the image will be re-processed.

Try opening the AAR door, this will depressurize the external tanks.

Keep in mind the zoom on the LITENING pod isn't digital like it should be (like on the ATP), making it unrealistically good. The ATP also has multi-track and an IR pointer.

You can create a custom cartridge profile with all your CMDS settings and load it in MP. The 'FILE' option at the top of the DTC menu is actually a button that will allow you to import a user-made profile.

Already planned: 
 

A track reply would help us see what exactly you're seeing, but I'm going to go out on a limb and suggest you Cursor Zero?

Have you tried inverting the brake axes?

Specifically, aircraft system time since generator power-up, displayed in minutes and seconds (MMSS). Only displays with weight-off-wheels.

Is it the same reticle as this?
 

Looking at the first screenshot, you forgot to Cursor Zero (denoted by the CZ option on the HSD).

The frequency is set in the mission editor per unit, the default being 127.5.

Think of Sequences like routes. If you're familiar with the F-16's steerpoint allocations, it's like steerpoints 1 through 20 for the navigation route. With the Hornet, however, you can create three different routes using any waypoints in any order.
When a sequence is boxed, the avionics assumes the intention is to navigate to those waypoints (possibly automatically and/or if coupled steering is desired). Since the Hornet has no way to edit waypoints in the cockpit without first selecting them for command steering, the only waypoints that can be scrolled through when a sequence is boxed are the ones inside that specific sequence, otherwise you could end up inadvertently steering to a waypoint outside the desired sequence.
Regarding markpoints, those exist outside the standard 60 waypoint (0 through 59) allocation, and therefore cannot be selected when a sequence is boxed.

Pressing FCS RESET in combination with the Paddle Switch is supposed to clear BLIN codes from the FCS display, AFAIK the full functionality of BLIN codes is not implemented.
Disengaging NWS should only require the Paddle Switch.

Ensure you do not select the 'All' option when changing laser codes on the F-15E, this will bug out the laser codes and you will be unable to change them (the kneeboard will show all laser codes as 0000). If you accidentally select the 'All' option, you can restore the laser code functionality by rearming the aircraft. To prevent the codes from bugging out, change the laser codes for each station instead (i.e. 'Left CFT,' 'Right CFT,' etc).
This issue has actually existed for quite some time:
 

These are listed in the controls list as:
- Transmit Switch - IFF IN (this would be right for "inboard")
- Transmit Switch - IFF OUT (this would be left for "outboard")

Your second waypoint is set to 20,000 feet MSL instead of at the target elevation.

I believe that's the "Air and Space Outstanding Unit Award," (previously the "Air Force Outstanding Unit Award") which the 148th Fighter Wing has earned quite a number of times.
https://www.afpc.af.mil/Fact-Sheets/Display/Article/421951/air-and-space-outstanding-unit-award/

From the Early Access Guide, page 541.

Pitch trim with flaps set to AUTO doesn't trim the stabs the way you would expect with flaps set to HALF or FULL.
With flaps in AUTO, pitch trim changes the FCS' G-command.
With flaps in HALF or FULL, pitch trim changes the FCS' AoA-command (use this to manually adjust the stab positions on the ground).
Depressing and holding the T/O Trim button commands the stabs to 12° nose-up (providing a TRIM advisory).
The FCS Reset button doesn't change anything regarding the position of any of the control surfaces, it only clears transient errors on the FCS page.

Depressing the SCS, then bumping it towards the ATTK format within a second (or 0.8s, can't remember which) will command manual IFF interrogation.
Alternatively you can enable automatic interrogation from the AZ/EL page with the AUTO INT option in the lower left corner.

@Pribs86 From what I can see in the first post, you have a slew delta in your steerpoint system (evidenced by the 'CZ' option for Cursor Zero on the HSD). Press the CZ option to zero the slew delta.

I don't know if the P3D procedures would be any different (also considering it's a Super Hornet v. Legacy Hornet), but you can always check the manual and see if the procedures differ.

There's a reported topic regarding flare effectiveness/flare rejection of air-to-air IR-guided missiles: