In mapinfo.txt for doom1 the MUSIC voice for E4M1 is wrong (i've found this because the music in OGG format didn't load properly) Actually is

# cat basev/doom1/scripts/mapinfo.txt
[...]
map E4M1 "hell beneath"
cluster 4
next E4M2
secret E4M9
sky1 SKY4 0
music D_e3m4
[...]

It should be music D_e1m8 [EDIT] Same thing in mapinfo.txt for doom2. Here's the differences:

$ diff -N -U 5 mapinfo.txt.ori mapinfo.txt
--- mapinfo.txt.ori     2006-09-25 15:01:26.000000000 +0200
+++ mapinfo.txt 2006-09-25 15:19:03.000000000 +0200
@@ -74,54 +74,54 @@
 map MAP11 "'o' of destruction!"
 cluster 6
 next MAP12
 secret MAP31
 SKY1 SKY1 0
-Music D_stlks2
+Music D_stalks

 ;------------------------------------------------------
 map MAP12 "the factory"
 cluster 7
 next MAP13
 secret MAP31
 SKY1 SKY2 0
-Music D_theda2
+Music D_the_da

 map MAP13 "downtown"
 cluster 7
 next MAP14
 secret MAP31
 SKY1 SKY2 0
-Music D_doom2
+Music D_doom

 map MAP14 "the inmost dens"
 cluster 7
 next MAP15
 secret MAP31
 SKY1 SKY2 0
-Music D_ddtbl2
+Music D_ddtblu

 map MAP15 "industrial zone"
 cluster 7
 next MAP16
 secret MAP31
 SKY1 SKY2 0
-Music D_runni2
+Music D_runnin

 map MAP16 "suburbs"
 cluster 7
 next MAP17
 secret MAP31
 SKY1 SKY2 0
-Music D_dead2
+Music D_dead

 map MAP17 "tenements"
 cluster 7
 next MAP18
 secret MAP31
 SKY1 SKY2 0
-Music D_stlks3
+Music D_stalks

 map MAP18 "the courtyard"
 cluster 7
 next MAP19
 secret MAP31
@@ -131,11 +131,11 @@
 map MAP19 "the citadel"
 cluster 7
 next MAP20
 secret MAP31
 SKY1 SKY2 0
-Music D_shawn2
+Music D_shawn

 map MAP20 "gotcha!"
 cluster 7
 next MAP21
 secret MAP31
@@ -146,18 +146,18 @@
 map MAP21 "nirvana"
 cluster 8
 next MAP22
 secret MAP31
 SKY1 SKY3 0
-Music D_count2
+Music D_countd

 map MAP22 "the catacombs"
 cluster 8
 next MAP23
 secret MAP31
 SKY1 SKY3 0
-Music D_ddtbl3
+Music D_ddtblu

 map MAP23 "barrels o' fun"
 cluster 8
 next MAP24
 secret MAP31
@@ -167,11 +167,11 @@
 map MAP24 "the chasm"
 cluster 8
 next MAP25
 secret MAP31
 SKY1 SKY3 0
-Music D_theda3
+Music D_the_da

 map MAP25 "bloodfalls"
 cluster 8
 next MAP26
 secret MAP31
@@ -181,18 +181,18 @@
 map MAP26 "the abandoned mines"
 cluster 8
 next MAP27
 secret MAP31
 SKY1 SKY3 0
-Music D_messg2
+Music D_messag

 map MAP27 "monster condo"
 cluster 8
 next MAP28
 secret MAP31
 SKY1 SKY3 0
-Music D_romer2
+Music D_romero

 map MAP28 "the spirit world"
 cluster 8
 next MAP29
 secret MAP31
@@ -202,11 +202,11 @@
 map MAP29 "the living end"
 cluster 8
 next MAP30
 secret MAP31
 SKY1 SKY3 0
-Music D_shawn3
+Music D_shawn

 map MAP30 "icon of sin"
 cluster 8
 next MAP01
 SKY1 SKY3 0

It's because these are the same songs that were included in the IWAD file multiple times. For OGG files you must create symlinks.