My ideas for Giovanni and TR are:
- Rather than two nameless Executives aimlessly searching for the leadership of the man who has given up on them, Team Rocket should gain a leader (perhaps Gideon) who knows what he's doing.
- He first appears to the player without revealing his identity after they've defeated Team Rocket in the Slowpoke Well, comments that it does not bode well and gives the player a small token for clearing them from the well and then goes on his way.
- His second appearance is at Mahogany Town and asks the player to infiltrate Team Rocket's base beneath the town. Once the base has been cleared, he goes to a computer in the base and analyzes something and immediately afterwords asks the player to head for Goldenrod where something major is going to happen.
- The Radio Tower event could be changed, with the new leader of Team Rocket attempting to do what was done in Mahogany Town, but on a national/global scale and upon doing so enrages either Ho-oh or Lugia. Once the leader has been defeated, (Silver, wanting to destroy Team Rocket himself appears only to find that the player has already done so, and right after) Giovanni appears and makes the revelation that he is the ex-Leader of Team Rocket and requests that the new leader disbands Team Rocket once and for all, to which the leader complies ending the siege on the Radio Tower. (Silver attempts to confront Giovanni to a battle, to which Giovanni rejects saying he will not duel his son. Silver is shocked to find that Giovanni is his father, but believes him to be a coward in his pacifism and leaves abruptly, Giovanni asks himself if he should have been in his son's life in the last few years, but moves on from it,) Giovanni then proceeds to give the player a feather he had found in Ecruteak/Cianwood and tells them of either the legend of the Whirl Islands or the Tin Tower, and then leaves to do more soul searching.
- Giovanni appears at the end of the game in Mt. Silver, and tells the player he hopes to face an 'old friend' of his, but first requests a battle against the player, to see if his training has been ample enough. Once defeated, he wonders if he will ever truly become powerful, but brushes it off as negative thoughts, thanks the player a final time and moves on after requesting that the player give his regards to his old friend(, and to his son).
* I italicized and bracketed the parts that pertain to if Silver is actually Giovanni's son.