Patch tool (Windows): xdelta UI
https://www.romhacking.net/utilities/598/
ROM Information: Mega Man X5 [SLUS-01334]

--The details of the patch are as follows--
The differences between this patch version include boss movement and some BGM, DNA parts system, damage adjustment, and more. For more information, see the "Readme.txt" file.
*The details of the patch are as follows
-The opening and ending music has been changed to include vocal songs like the Japanese version.
-The BGM's of the Tidal Whale stage, the Dr. Light capsules and the Stage Select 2 have been changed.
-The names of the bosses have been changed to those of the X Legacy Collection version.
-HP and damage of enemies and bosses have been adjusted.
-The boss level has been removed.
-The position of the health bar of the bosses has been lowered a little.
-The invincibility time for most bosses has been increased. (reflects the X4 system, Except for Spiral Pegasus and Sigma 2nd form)
-Zero's combo slash are not available for Crescent Grizzly, Tidal Whale, Shadow Devil, Rangda Bangda W and Sigma 2nd.
-Changed the behavior of bosses when they are hit by their weakness.
-Boss actions are faster.
-The Y-axis of Dark Necrobat's position has decreased slightly.
-X's weakness has been changed Messenkou to F-Slasher, and Zero's weakness has been changed to "Ground Fire".
-Most of Alia's notifications have been cut off.
-Caliber and attack power of Special Weapons have been adjusted.
-The weapon gauge decreases more slowly when using "Dark Hold".
-"Tri-Thunder" Charged Shot only strikes the lightning once.
-Zero's attack power has been reduced. (Boss only)
-Zero's "W-Shredder" command has been changed to Dash + Special Key.
-The location of the enemies has been slightly modified in some stages.
-Tidal Whale's stage scrolling speed has been increased.
-Requires "Tri-Thunder" instead of "Goo Shaver" to get the armor part in Tidal Whale's stage.
-The "Tri-Thunder" charged shot in Tidal Whale's stage can also break boxes near hearts.
-The pillars of fire that appear in the Burn Dinorex stage can be eliminated with Zero's "W-Shredder".
-The magma flow time in the Burn Dinorex stage has been shortened.
-The countdown of the bombs in the Spiral Pegasus stage has been slowed down.
-The number of spikes in the Rangda Bangda wall pattern has been reduced from 5 to 3.
-Winning a heart increases both X's and Zero's health.
-The DNA parts given by the boss have been changed.
-Unarmed X and Zero can equip to two DNA parts and Armored X can equip to one. (Gaea Armor cannot be equip)
-When the "Saber Extend" DNA Parts is equip, the range of saber strikes increases depending on the position of the yellow Effect.
-Forth Armor's defense has decreased.(Approximately 1.1 times of Unarmored X)
-The color of the DNA parts has been Fixed.
-The system to receive life and energy when killing the boss has been removed.
-The file selection screen has been changed.
-When you lose the game, the stage starts from the beginning.
-In the Zero Weapon Selection window when zero-buster is not present, the mistake that the primary weapon is marked "GIGA ATTACK" has been fixed to "Z-SABER".
-Fixed a mistake where "MMH" was written as "MEH" when entering the weapon selection window after getting the "MMH" rank.
-If you kill all 8 bosses, there is a 100% chance to successfully take down the colony.
-The destruction of enemy bullets or obstacles is not reflected in the number of defeated mavericks.
-Fixed a graphic error in the Armor Capsule.
-Rank up conditions have become easier.(Rank System.txt reference)
-Removed the pit in the beginning of volt kraken stage.
-Changing the location where lava doesn't flow in Burn Dinorex Stage.
-Fixed the enemy's position in Burn Dinorex Stage.
-In the Armor selection window, sorted in order of Falcon Armor→Gaea Armor→Ultimate Armor→Zero.
-Reduced the number of enemies in easy mode.
-Spiral Pegasus's hitbox has lengthened slightly.
-Zero's techniques renamed.
C-Sword to Mikazukizan
F-Splasher to Hisuishou
E-Blade to Denjin
C-Flasher to Messenkou
W-Shredder to Hayate
Quake Blazer to Danchien
Twin Dream to Sougenmu
-DNA parts are paid differently depending on whether the stage is cleared with X or Zero.
-Dynamo's hitbox has gotten a bit wider.
-Togeroid moves faster.
-Mad Taxi's hit box has widened.
[1.8 update]
-If you kill the boss, DNA parts are paid differently depending on whether the stage is cleared with X or Zero.
-Clearing the 8 Boss Stage for both X and Zero gives you all the DNA parts.
-When you gameover and continue on all stages, you start with the checkpoint.
-Metool Sprite and palette was modified.
-Replioid doesn't give you a live anymore.
-X or Zero can't hold on to the wall of ice that Tidal whale fire.