Sounds like tha Pack 1 Trip ended up being a significant factor in them losing time to smoke in the cockpit.
"The flight crew was able to restore Pack 1 operation at climb 12,200 ft (UTC 15:00:03) by accomplishing a reset per the PACK 1,2,3 non-normal procedure. All three packs were on at the time of the FIRE MAIN DECK indication (UTC 15:13:46). Pack 2 and Pack 3 were then shutoff. This is the expected result of the crew performing the FIRE MAIN DECK non-normal procedure. Pack 1 was the only remaining source of flight deck ventilation per system design. However, FDR indicates that Pack 1 stopped operating at UTC 15:15:21. The shutdown of Pack 1 resulted in loss of all ventilation to the flight deck, which compromised flight deck smoke control. Furthermore, with no packs operating, the Forward Equipment Cooling System automatically reconfigured into the “closed loop” mode, which changed the cooling air to the flight deck instruments from pack air (outside “fresh” air) to recirculated air via the equipment cooling fan. Consequently, any smoke that would have migrated to the E/E Bay would have been drawn into the Forward Equipment Cooling System and supplied to the flight deck instruments. The system is capable of automatically restoring Pack 3 operation if Pack 1 is detected off. However, this capability does not exist if the Pack 3 selector is in the OFF position. Because the FIRE MAIN DECK nonnormal checklist instructed the flight crew to select off Pack 3, it was not able to be automatically restored upon the loss of Pack 1 at UTC 15:15:21. Boeing subsequently revised the crew procedure to eliminate the instructions for selecting off Pack 3"
That, and the CA oxygen hose failure leading to him having to search for the portable. What a tragic series of events. May their families have some peace in the knowledge that they fought until the end.
RIP.
PS: A UPS freind of mine told me yesterday that they do not carry lithium batteries as cargo any longer (just as equipment in the ELT and ship's batteries on the 787).