Emagging the anomaly compressor will eject the bomb the next time someone tries to use it.

code/modules/research/anomaly/anomaly_refinery.dm

@@ -42,6 +42,12 @@
 	. = ..()
 	RegisterSignal(src, COMSIG_ATOM_INTERNAL_EXPLOSION, .proc/check_test)
 
+/obj/machinery/research/anomaly_refinery/examine_more(mob/user)
+	. = ..()
+	if (obj_flags & EMAGGED)
+		. += span_notice("A small panel on [p_their()] side is dislaying a notice. Something about firmware?")
+
+
 /obj/machinery/research/anomaly_refinery/assume_air(datum/gas_mixture/giver)
 	return null // Required to make the TTV not vent directly into the air.
 
@@ -116,10 +122,25 @@
 		return FALSE
 	return TRUE
 
+/obj/machinery/research/anomaly_refinery/emag_act(mob/user, obj/item/card/emag/emag_card)
+	. = ..()
+	if (obj_flags & EMAGGED)
+		balloon_alert(user, span_warning("already hacked!"))
+		return
+
+	obj_flags |= EMAGGED
+	playsound(src, 'sound/machines/buzz-sigh.ogg', 50, vary = FALSE)
+	say("ERROR: Unauthorized firmware access.")
+	return TRUE
+
 /**
  * Starts a compression test.
  */
 /obj/machinery/research/anomaly_refinery/proc/start_test()
+	if (active)
+		say("ERROR: Already running a compression test.")
+		return
+
 	if(!istype(inserted_core) || !istype(inserted_bomb))
 		end_test("ERROR: Missing equpment. Items ejected.")
 		return
@@ -131,11 +152,31 @@
 	say("Beginning compression test. Opening transfer valve.")
 	active = TRUE
 	test_status = null
+
+	if (obj_flags & EMAGGED)
+		say("ERROR: An firmware issue was detected while starting a process. Running autopatcher.")
+		playsound(src, 'sound/machines/ding.ogg', 50, vary = TRUE)
+		addtimer(CALLBACK(src, .proc/error_test), 2 SECONDS, TIMER_STOPPABLE | TIMER_UNIQUE | TIMER_NO_HASH_WAIT) // Synced with the sound.
+		return
+
 	inserted_bomb.toggle_valve(tank_to_target)
-	tank_to_target = null
 	timeout_timer = addtimer(CALLBACK(src, .proc/timeout_test), COMPRESSION_TEST_TIME, TIMER_STOPPABLE | TIMER_UNIQUE | TIMER_NO_HASH_WAIT)
 	return
 
+/**
+ * Ejects a live TTV.
+ * Triggered by attempting to operate an emagged anomaly refinery.
+ */
+/obj/machinery/research/anomaly_refinery/proc/error_test()
+	message_admins("[src] was emagged and ejected a TTV")
+	investigate_log("was emagged and ejected a TTV", INVESTIGATE_RESEARCH)
+	obj_flags &= ~EMAGGED
+
+	say("Issue resolved. Have a nice day!")
+	inserted_bomb.toggle_valve(tank_to_target)
+	eject_bomb(force = TRUE)
+	timeout_timer = addtimer(CALLBACK(src, .proc/timeout_test), COMPRESSION_TEST_TIME, TIMER_STOPPABLE | TIMER_UNIQUE | TIMER_NO_HASH_WAIT) // Actually start the test so they can't just put the bomb back in.
+
 /**
  * Ends a compression test.
  *
@@ -144,6 +185,8 @@
  */
 /obj/machinery/research/anomaly_refinery/proc/end_test(message)
 	active = FALSE
+	tank_to_target = null
+	test_status = null
 	if(inserted_core)
 		eject_core()
 	if(inserted_bomb)
@@ -216,8 +259,8 @@
 	reaction_increment += 1
 
 /// We dont allow incomplete valves to go in but do code in checks for incomplete valves. Just in case.
-/obj/machinery/research/anomaly_refinery/proc/eject_bomb(mob/user)
-	if(!inserted_bomb || active)
+/obj/machinery/research/anomaly_refinery/proc/eject_bomb(mob/user, force = FALSE)
+	if(!inserted_bomb || (active && !force))
 		return
 	if(user)
 		user.put_in_hands(inserted_bomb)