Clean Stratocaster tone
Budget Rig (~$650)
Guitar
Squier Classic Vibe 60s Stratocaster (£399)
Amp
Fender Blues Junior IV (£549)
Pedals
Ibanez TS9 Tube Screamer (£89)
Boutique Rig
Guitar
Fender Custom Shop 1964 Stratocaster (£3,500+)
Amp
Two-Rock Custom Reverb (£3,200)
Pedals
Ibanez TS808 Tube Screamer (£159) + Klon Centaur clone (£200)
What the extra money changes
The Custom Shop Strat has better fret work, more consistent pickup output, and a more resonant body that sustains longer acoustically. The Two-Rock responds more dynamically to pick attack and has a more complex harmonic content at similar volume levels. These are real, audible differences.
What it doesn't change
The signal chain relationship — Stratocaster pickups pushing the front end of a clean Fender-voiced amp with a Tube Screamer — is identical. The technique that works on the boutique rig works on the budget rig. The fundamental tonal character is the same type of sound.
Verdict
The boutique rig is better in ways a player with the technique to exploit them will notice. For most players, the $650 rig produces a tone that is functionally equivalent at bedroom volume and in a band context.