Police found more than 350 grams of methylamphetamine and more than $70,000 in cash at a Wendouree home on Sunday night.

Appearing from the cells at Ballarat Police Station, Craig Scott, 30, made an application for bail at the Ballarat Magistrates' Court on Monday afternoon.

The court heard police attended an Essex Street address on Sunday night to arrest a suspect as part of an investigation into the non-fatal shooting of a 17-year-old male last week.

The Armed Crime Squad and Special Operations Group attended the Wendouree address about 9.30pm, with the court hearing police stood outside the house and called through a speaker for everyone inside the home to exit with their hands up.

A nominal informant from the Ballarat Crime Investigation Unit told the court a 22-year-old was arrested at the address in relation to the alleged shooting.

This arrest was at Craig Scott's home but it was not alleged the 30-year-old was involved in the incident.

However, as the arrest had unfolded a detective spotted methylamphetamine in the front bedroom.

The informant told the court that Scott had admitted it was his, was arrested and taken back to the police station. About an hour later, an evidence search warrant was executed at the home.

During the search police found two large blocks of a "crystal substance" in the toilet bowl. The blocks weighed in at 355 grams, with initial tests confirming them to be methylamphetamine.

In the bedroom they found ziplock bags filled with cannabis, Xanax and another with a crystal substance, with initial tests confirming it to be methylamphetamine.

A black satchel was found in the garage containing a large amount of cash, later counted to be $73,850.

Police also found and seized multiple rounds of ammunition, several mobile phones, three cameras, a hard drive, a cross bow and a camera system.

The court was told the methylamphetamine found at the property had a street value of about $177,000.

In an interview with police, Scott made partial admissions to owning some of the items but said the blocks found in the toilet had been purchased online to deodorise the toilet.

There were also two females present in the house at the time who are not being investigated in relation to the matters.

He has been charged with trafficking a commercial quantity of methylamphetamine, which his lawyer said he would contest.

The court heard Scott's criminal history included multiple counts of trafficking methylamphetamine.

In applying for Scott to be bailed, his defence lawyer Sarah Pratt submitted he could be bailed with a condition to wear an electronic monitoring ankle bracelet to enable police to monitor his movements.

But police argued this would not prevent him from potentially continuing to traffic drugs.

"I don't think this would restrict him from getting up to criminal activities," the informant said.

He added the list of restricted places would be too long.

"I think his associates are that wide within the Ballarat community that the list would be far too long," the informant said.

"I don't think there's any way we could accurately mitigate that risk. Any zone would allow him to conduct his criminal activities."

In attempting to prove exceptional circumstances for bail Ms Pratt said the conditions in custody were onerous at the moment and that there were delays in the justice system.

She said Scott had mental health and addiction issues that could be mitigated with substance abuse counselling and regular drug testing.

She said he had "significant supports in place" and risk could be further mitigated with a court-imposed curfew, being banned from using encrypted apps and from having more than one mobile phone.

Yet police outlined concerns about the amount of drugs and cash seized and that if released, Scott could continue to offend and could be a flight risk.

Magistrate Tim Walsh said he was not satisfied exceptional circumstances had been met.

He also noted that the prosecution case was "extremely strong".

"What I have before me is a convicted and known drug trafficker on whose premises 350 odd grams of methylamphetamine and in excess of $70,000 cash was found," he said.

Magistrate Walsh refused the application for bail and remanded Scott in custody to reappear in court in January.

Meanwhile, police were yet to charge the 22-year-old Brown Hill man on Monday evening.

After his arrest he was taken to hospital, where he remains under police guard, to receive treatment after an unrelated incident.

It is expected he would be charged with intentionally causing serious injury.

Our team of local journalists work hard to provide local, up-to-date news to the Ballarat community. This is how you can continue to access our trusted content: