I did a fresh install of MW GOTY, added some mods and I keep getting these entries in my warnings.txt file. Hopefully someone can help me to get them to stop. Thanks in advance.

One of the files that "LGNPC_SecretMasters_MCA5.esp" is dependent on has changed since the last save.
This may result in errors. Saving again will clear this message
but not necessarily fix any errors.
One of the files that "Entertainers_Expanded.esp" is dependent on has changed since the last save.
This may result in errors. Saving again will clear this message
but not necessarily fix any errors.
One or more plugins could not find the correct versions of the master files they depend on. Errors may occur during load or game play. Check the "Warnings.txt" file for more information.
Texture "Textures\_land_default.tga" count 3.
Texture "Textures\TX_A_StuddedLeather_cuirass00.dds" count 4.
Texture "Textures\menu_thick_border_bottom_right_corner.dds" count 2.

[Game Files]
GameFile0=Bloodmoon.esm
GameFile1=Book Rotate.esm
GameFile2=MCA.esm
GameFile3=Morrowind Patch v1.6.4.esm
GameFile4=Morrowind.esm
GameFile5=Tribunal.esm
GameFile6=AreaEffectArrows.esp
GameFile7=Blight Bounties.esp
GameFile8=BloodmoonAmmoFix.esp
GameFile9=Book Rotate - Morrowind v1.1.esp
GameFile10=Clean Tales of Seyda Neen.esp
GameFile11=Daggerfall Collection Ver 1.1.esp
GameFile12=EBQ_Artifact.esp
GameFile13=Entertainers_Expanded.esp
GameFile14=LGNPC_AldVelothi_v1_20.esp
GameFile15=LGNPC_Aldruhn_v1_20.esp
GameFile16=LGNPC_Aldruhn_v1_22_suppl.esp
GameFile17=LGNPC_GnaarMok_v1_20.esp
GameFile18=LGNPC_HlaOad_v1_32.esp
GameFile19=LGNPC_IndarysManor_v1_51.esp
GameFile20=LGNPC_Khuul_v2_21.esp
GameFile21=LGNPC_MaarGan_v1_20.esp
GameFile22=LGNPC_NoLore_v0_83.esp
GameFile23=LGNPC_PaxRedoran_v1_20.esp
GameFile24=LGNPC_Pelagiad_v1_31.esp
GameFile25=LGNPC_SecretMasters_MCA5.esp
GameFile26=LGNPC_SecretMasters_v1_30.esp
GameFile27=LGNPC_SoulSicknessPatch_v1_00.esp
GameFile28=LGNPC_TelMora_v1_30.esp
GameFile29=LGNPC_TelUvirith_v1_20.esp
GameFile30=LGNPC_VivecFQ_v2_20.esp
GameFile31=LGNPC_VivecRedoran_v1_61.esp
GameFile32=Lgnpc_SN.esp
GameFile33=Mashed Lists.esp
GameFile34=Nerevarine Greeting tweaks.esp
GameFile35=Nymeria's Mages'guild fix.esp
GameFile36=Oblivion_and_LGNPC_Books.esp
GameFile37=Siege at Firemoth.esp
GameFile38=Syc_MorrowindsStupidestCriminals.esp
GameFile39=Tales of the Bitter Coast.esp
GameFile40=Westly's Master Headpack X.esp
GameFile41=adamantiumarmor.esp
GameFile42=bcsounds.esp

Looking in Wyre Mash 84, the only mods not having a green checkbox are:
MCA.esm, Morrowind Patch v1.6.4.esm, Entertainers_Expanded.esp, LGNPC_SecretMasters_MCA5.esp

it just means that they were made with out requiring the expansions. you can up date them with Wyre Mash and those will go away they are nothing really...