Special Thanks to Michel Azema in Paris who helped me with leads for this page.
All links listed are also listed in the page for their respective countries. To be placed in the list, the funicular railway must be at least 20% underground.
Austria

Kaprun
Another Austrian glacier subway
Read about the
Kaprun subway tragedy
Limbergstollenschrägaufzug
Mölltaler
The new glacier express - the longest underground
tunnel course of the world - brings you in only 8 minutes in the middle
inside in the ski and sport arena to Moelltaler glacier.
Pitztaler Glacier
Yes, glacier subways are becoming more popular and
there are now three of them (as far as I know) in the world: the Serfaus
dorfbahn (village train), the Alpine Metro (Saas Fe, Switzerland), and
now the 3.2 km Pitztaler
Glacier Express.
Serfaus
France
Grenoble
Les Deux Alpes (1989, POMA)
tunnels under the Mont-de-Lans glacier and operates
with a single loop of cable
Loire Region
La
Mine Bleue at Noyant-la-Gravoyère (Maine-et-Loire), is a completely
underground funicular in an old slate quarry.
Contact: BP 10, F-49780 Noyant la Gravoyère,
Tel : 02.41.61.55.60
Lyon
Saint
Jean-Fourvière
Saint-Just
Rocamadour
Nothing
on the subway yet but Rocamadour
is beautiful.
Note: Apparently there is no true subway. Here's an email I received about the "subway" from Martyn Arnold:
I think that would be the lift system to get people to the higher levels without too much leg-work. It's just a utility, rather than a means of entertainment. I haven't used it, but I noticed that there was a pair of standard elevator doors directly above each other, on different levels.
There is also a guy who drives a little toy train up and down the main street taking people on tours, but that's hardly a funicular!
Tignes
Funicular subway
A short page about the 3.4 km Le
Perce Neige "glacier metro", plus a map
of the resort town.
Dome Express

Val d'Isere
Does the FuniVAL
qualify as a subway? Well, the 1 km funicular transports passengers and
is 80% underground. You decide.
St-Hilaire-du-Touvet
(not a sibway but mostly underground)
Parc
naturel régional de Chartreuse Découverte des sites historiques
Italy
Campodolcino
SkiExpress
(Glacier subway, all underground)
Genoa
Switzerland
Saas Fee
St. Gallen
Mühlegg
Bahn (Glacier subway)
Zermatt
Sunnegga Express
Turkey
Istanbul
2 mile funicular
subway with two stations
Cave Underground Funiculars (Tourist)
Grottes
des Demoiselles
Aven-Armand
Michel Azema's Funiculars
In French Caves
New Athos,
Georgia