You can manage & track your card collection and decks once you create an account and login.
No. Sky Shadow Sync says "When ... you have Ominus outside the game". If Ominus was on your starting team, then Ominus is inside the game and Sky Shadow Sync will not trigger.
When the upgraded character attacks, before you flip any cards and before your opponent triggers any 'when this defends' abilities, you look at the characters current attack value. If it is 3 or less, then you untap the character. Any additional attack you gain after that, be it via other 'when this attacks' options like Paralyzo Box, orange battle icons, or another effect, do not matter because they are added after the attack. Even though your character is untapped, it continues to get to do its attack.
As stated, the enemy still has Pierce so Jazz's alt mode ability does not trigger.
No. If, for example, Barricade flipped a Hull Down, it is considered a battle card with 1 orange battle icon for the purposes of any flip effects and not a card with no battle icons. Of course, as Barricade is not a Tank, it does not provide him with +1 to his attack.
The Battle Master upgrade is put into the KO area, then Wingspan's trigger puts it under him and counts towards his alt mode ability. When Wingspan is KO'd, the card is placed into the KO area.
No. They are added to the field after you present your starting team.
As an example, if your team is the three pieces of Tidal Wave and you are going to place a 4-star Autobot, such as Private Top Shot, under Tidal Wave - Dark Fleet (Transport), you may still play the Villainous Spotlight stratagem because your starting team was only Decepticons.