The Scotland international apologised the following day for the incident and claimed he had only meant to remove the item from the pitch after it was thrown on following a Saints goal in the away side's 2-0 win on September 22.
Griffiths was charged by Police Scotland in relation to "culpable and reckless" conduct and now the SFA has also charged the 31-year-old striker, on loan from Celtic, for bringing the game into disrepute and acting in a manner which is improper and not in the best interests of the game.
In his statement released on Dundee's official website the day after the incident, Griffiths said: "It was regrettable that the pyrotechnic ended up back in the stand as my intention was just to remove it from the pitch.
"Having just lost a goal I was eager to get the match restarted as quickly as possible and I would like to apologise for any distress caused by this action."
The principal hearing for the case is on Thursday, October 14.
Monaco 
Stade Brestois 29 
Bordeaux 
Nimes 
Bayern Munich 
FC Augsburg 
Paris Saint Germain 
Toulouse 
CSKA Moscow 
FC Rostov 
Leicester 
Chelsea 
Valencia 
Betis 
Dynamo Kyiv 
Chornomorets Odesa 
Verona 
Inter 
Bayer Leverkusen 
FC Heidenheim 
Borussia Dortmund 
SC Freiburg 
VFL Wolfsburg 
Union Berlin 
Arsenal 
Nottingham Forest 
Everton 
Brentford 
Spartak Moscow 
Lokomotiv Moscow 
Rangers 
Dundee Utd 
Atletico Madrid 
Alaves 
Lens 
Marseille 
Ingulets Petrove 
Shakhtar Donetsk 
AC Milan 
Juventus 
ST Malo 
Manchester City 
Tottenham 
Eintracht Frankfurt 
Werder Bremen 
Girona 
Espanyol 
Feyenoord 
Heerenveen 
ST Etienne 
Montpellier 
Grenoble Foot 38 
Heart Of Midlothian 
Celtic 
Reims 
Lyon 
PSV 
Groningen