Well I resolved that for me with a small plugin
Looks not so good and it additionaly minifies bundle but that works

import * as ts from "typescript";
import * as tstl from "typescript-to-lua";
const luaparse = require('luaparse')
const luamin = require('luamin')

const plugin: tstl.Plugin = {
    beforeEmit(program: ts.Program, options: tstl.CompilerOptions, emitHost: tstl.EmitHost, result: tstl.EmitFile[]) {
        if (!options.luaBundle) return;
        const file = result[0];
        
        const ast = luaparse.parse(file.code, {
            luaVersion: options.luaTarget,
            scope: true
        })

        
        const modules = (ast.body as any[])
        .filter(x => x.type == 'AssignmentStatement' && (x.variables as any[]).find(x => x.name == '____modules'))
        const initIdx = (modules[0].variables as any[]).findIndex(x => x.name == '____modules')
        
        const initFields = modules[0].init[initIdx].fields as { key: {raw: string} }[]
        const lualibIdx = initFields.findIndex(x => x.key.raw == `"lualib_bundle"`)
        initFields.splice(lualibIdx, 1)

        file.code = luamin.minify(ast)
    },
};

export default plugin;

Uh oh!

To not include lualib into bundle #1630

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