In the papers, Hopper claims his wife has kept Galen from him for long periods of time. He said he spent Christmas "in utter distress" after Duffy-Hopper took Galen to Boston, a trip he learned about from her attorney.
"This malevolent act ... has caused me to miss what may very well be my last Christmas with my daughter Galen," Hopper said in his filing.
In court last month, a judge ruled that Duffy-Hopper must stay at least 10 feet away from Hopper; his son, Henry; his daughter, Marin; and his assistant, Emily Davis, according to TMZ.com. The judge also ruled that Duffy-Hopper may not enter the main Hopper residence in Venice, Calif., or any other portion of the property other than the unit in which she is currently living.
However, Duffy-Hopper maintains primary custody of Galen. The judge granted Hopper the right to visit his daughter every day for two hours.
Hopper's claims come in the wake of Duffy-Hopper's response to his divorce filing, in which she said the ailing actor was being coerced to leave her by his adult children, who want a larger piece of his estate.
In a declaration filed in Los Angeles Superior Court in January and obtained by ABC News, Duffy-Hopper said Hopper had been rendered mentally incapable of making decisions for himself or in the best interests of Galen.
In the filing she asserted that Hopper, allegedly addled by illness and drug use, threatened her verbally, kept loaded guns around the house, and exposed their young daughter both to his frequent marijuana use and to films that contain inappropriate sexual content.
She accused Hopper of being verbally abusive, claiming that in 2008 he called her "a human garbage can." In 2009, she alleges in the papers, he threatened her: "Something bad is going to happen to you and you won't see it coming."
The Kansas-born Hopper has had a colorful career in Hollywood. He shot to fame with "Easy Rider." Before that, he acted alongside James Dean in "Rebel Without a Cause" and "Giant." In 1979, Hopper appeared in "Apocalypse Now" and in 1994, "Speed." His more recent work includes the role of record producer Ben Cendars in the cable TV series "Crash."
ABC News' Sheila Marikar contributed to this report.