Disaggregated Prefill/Decode — NVIDIA Dynamo and llm-d

> Prefill is compute-bound; decode is memory-bound. Running both on the same GPU wastes one resource. Disaggregation splits them onto separate pools and transfers KV cache between them over NIXL (RDMA/InfiniBand or TCP fallback). NVIDIA Dynamo (GTC 2025 announce, 1.0 GA) sits above vLLM/SGLang/TRT-LLM — its Planner Profiler + SLA Planner auto-rate-match prefill:decode ratios to meet SLOs. NVIDIA publishes throughput gains in this ballpark — developer.nvidia.com (2025-06) shows a ~6x improvement for DeepSeek-R1 MoE on GB200 NVL72 + Dynamo in the medium-latency regime, and the Dynamo product page (developer.nvidia.com, undated) advertises up to 50x MoE throughput on GB300 NVL72 + Dynamo vs Hopper. The "30x" figure is a community aggregate across full-stack Blackwell + Dynamo + DeepSeek-R1 reports; we have not found a single primary source stating exactly 30x, so treat it as a directional claim. llm-d (Red Hat + AWS) is Kubernetes-native: prefill / decode / router as independent Services with per-role HPA. llm-d 0.5 adds hierarchical KV offloading, cache-aware LoRA routing, UCCL networking, scale-to-zero. Economics: internal rollup of multiple customer disclosures suggests 30–40% savings on $2M-class inference spend (i.e., $600-800K/year) when switching from colocated serving to disaggregated with Dynamo at constant SLA; the specific $2M→$600-800K figure is an internal composite, not a single published case study — use it as an order-of-magnitude anchor, not a reference citation. Short prompts (<512 tokens, short output) don't justify the transfer cost.

Type: Learn

Languages: Python (stdlib, toy disaggregated-vs-colocated simulator)

Prerequisites: Phase 17 · 04 (vLLM Serving Internals), Phase 17 · 08 (Inference Metrics)

Time: ~75 minutes

Learning Objectives

• Explain why prefill and decode have different optimal GPU allocations and quantify the waste under colocation.
• Diagram the disaggregated architecture: prefill pool, decode pool, KV transfer via NIXL, router.
• Name the condition when disaggregation does NOT pay off (short prompts, short outputs).
• Distinguish NVIDIA Dynamo (stack-above) from llm-d (Kubernetes-native) and match each to an operational context.

The Problem

You run Llama 3.3 70B on 8 H100s. Under mixed workload (long prompts + short outputs), GPUs idle during decode because most of the compute was spent on prefill. Under different workload (short prompts + long outputs), the opposite happens. Colocated prefill + decode means you over-provision both.

Budget impact: 20-40% of GPU time is wasted on the wrong resource. You are buying H100 compute to run memory-bound decode, or buying H100 HBM bandwidth to run compute-bound prefill. Both are expensive waste.

Disaggregation splits prefill and decode onto separate pools sized for each's bottleneck. KV cache transfers from prefill pool to decode pool via high-bandwidth interconnect.

The Concept

Why the bottlenecks differ

Prefill — run the transformer over the full input prompt in one forward. Matrix multiplications dominate; compute-bound. H100 FP8 gives ~2000 TFLOPS of useful throughput. Batch efficiency is good — one forward processes many tokens.

Decode — generate one token at a time, reading the full weights each iteration. Memory-bandwidth-bound. HBM3 gives ~3 TB/s. Batch efficiency is good only at high concurrency — the weights read amortizes across the batch.

Colocating them: you buy GPUs optimized for both. H100 is good at both but costs the same either way. At scale, you want prefill pool on H100 / compute-heavy; decode pool on H200 / memory-heavy, or with aggressive quantization.

The architecture

            ┌──────────────┐
  Request → │    Router    │ ───────────────────────┐
            └──────┬───────┘                        │
                   │                                │
                   ▼ (prompt only)                  │
            ┌──────────────┐    KV cache    ┌───────▼──────┐
            │ Prefill pool │ ─── NIXL ────► │ Decode pool  │
            │  (compute)   │                │  (memory)    │
            └──────────────┘                └──────┬───────┘
                                                   │ tokens
                                                   ▼
                                                 Client

NIXL is NVIDIA's inter-node transport. Uses RDMA/InfiniBand when available, TCP fallback otherwise. Transfer latency is real — typically 20-80 ms for KV cache of a 4K-token prompt on 70B FP8. This is why short prompts don't justify disaggregation: the transfer tax exceeds the savings.

Dynamo vs llm-d

NVIDIA Dynamo (GTC 2025 announce, 1.0 GA):

• Sits above vLLM, SGLang, TRT-LLM as an orchestrator.
• Planner Profiler measures workload, SLA Planner auto-configures prefill:decode ratios.
• Rust core, Python extensibility.
• Throughput gains: NVIDIA reports 6x for DeepSeek-R1 MoE on GB200 NVL72 + Dynamo in the medium-latency regime (developer.nvidia.com, 2025-06); community reports of "up to 30x" on full Blackwell + Dynamo + DeepSeek-R1 stacks lack a single primary source and should be treated as directional.
• GB300 NVL72 + Dynamo: up to 50x MoE throughput vs Hopper per the Dynamo product page (developer.nvidia.com, undated).

llm-d (Red Hat + AWS, Kubernetes-native):

• Prefill / decode / router as independent Kubernetes Services.
• Per-role HPA with queue depth (prefill) / KV utilization (decode) signals.
• topologyConstraint packDomain: rack packs prefill+decode cliques on the same rack for high-bandwidth KV transfer.
• llm-d 0.5 (2026): hierarchical KV offloading, cache-aware LoRA routing, UCCL networking, scale-to-zero.

Use Dynamo if you want a managed stack-above orchestrator. Use llm-d if you want Kubernetes-native primitives and are committed to the CNCF ecosystem.

Economics

Internal composite (not a single published case study — order-of-magnitude anchor):

• $2M/year inference spend on colocated serving.
• Switched to disaggregated with Dynamo.
• Same request volume, same P99 latency SLA.
• Reported savings: $600K–$800K/year (30–40% reduction).
• No new hardware.

We synthesize this figure from multiple customer disclosures rather than a single citable case study; closest published data point is Baseten's 2x faster TTFT / 61% higher throughput with Dynamo KV routing (baseten.co, 2025-10), and VAST + CoreWeave's projection of 60–130% more tokens/$ at 40–60% KV hit rate (vastdata.com, 2025-12). The savings come from right-sizing each pool; prefill-heavy workloads (RAG with 8K+ prefixes) benefit more than balanced ones.

When NOT to disaggregate

• Prompts < 512 tokens and outputs < 200 tokens: transfer tax dominates gain.
• Small cluster (< 4 GPUs): not enough pool diversity.
• Team cannot operate two GPU pools with per-role scaling: Dynamo helps but not trivially.
• No RDMA fabric: TCP transfer tax is heavier.

The router integrates with Phase 17 · 11

Disaggregated routers are KV-cache-aware (Phase 17 · 11). A request lands on the decode pool holding its prefix — if no match, it flows prefill → decode. Hit rate and disaggregation compound — the cache-aware router determines whether a new prefill is even needed.

MoE on Blackwell is where the real numbers are

GB300 NVL72 + Dynamo shows 50x MoE throughput over Hopper baselines. MoE expert routing is compute-heavy on prefill but memory-heavy on decode (expert caches), so disaggregation is a double win. 2026 frontier model serving is MoE-dominant (DeepSeek-V3, future GPT-5 variants).

Numbers you should remember

Benchmark numbers drift — NVIDIA and the inference stack post updated results every quarter. Re-check before quoting.

• DeepSeek-R1 on GB200 NVL72 + Dynamo: ~6x throughput vs baseline in the medium-latency regime (developer.nvidia.com, 2025-06); community "up to 30x" claims on full Blackwell + Dynamo stacks are directional aggregates without a single primary source.
• GB300 NVL72 + Dynamo: up to 50x MoE throughput vs Hopper (developer.nvidia.com, undated).
• Savings anchor (internal composite, not a single case study): $600-800K/year off a $2M annual spend at constant SLA.
• Disaggregation threshold: prompts >512 tokens + outputs >200 tokens.
• KV transfer via NIXL: 20-80 ms for 4K-prompt KV on 70B FP8.

Use It

code/main.py simulates colocated vs disaggregated serving. Reports throughput, cost per request, and the prompt-length crossover.

Ship It

This lesson produces outputs/skill-disaggregation-decider.md. Given workload and cluster, decides whether to disaggregate.

Exercises

1. Run code/main.py. At what prompt length does disaggregation beat colocation?
2. Design the prefill pool and decode pool for a RAG service with P99 prefix length 8K, output 300.
3. Dynamo vs llm-d: pick one for a pure-Kubernetes shop with no Python runtime preference.
4. Compute KV transfer cost: 4K prefill on 70B FP8 = ~500 MB KV. At RDMA 100 GB/s, transfer = 5 ms. At TCP 10 GB/s = 50 ms. Which matters for your SLA?
5. MoE expert routing changes KV access patterns. How does disaggregation behave with MoE that activates different experts per token?

Key Terms

Further Reading

• NVIDIA — Introducing Dynamo
• NVIDIA — Disaggregated LLM Inference on Kubernetes
• TensorRT-LLM Disaggregated Serving blog
• llm-d GitHub
• llm-d 0.5 release notes